Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 111 of 182
Found at i:36161249 original size:17 final size:17
Alignment explanation
Indices: 36161227--36161264 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
36161217 ATTAATTTAA
*
36161227 TAATTTAATAGTAATTT
1 TAATTTAATACTAATTT
*
36161244 TAATTTAATACTTATTT
1 TAATTTAATACTAATTT
36161261 TAAT
1 TAAT
36161265 AGTATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (17 bp):
TAATTTAATACTAATTT
Found at i:36162859 original size:21 final size:22
Alignment explanation
Indices: 36162827--36162868 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36162817 TTGACCGGAT
36162827 CCAAAAATAAAT-AAATAAAAC
1 CCAAAAATAAATAAAATAAAAC
36162848 CCAAATAA-AAATAAAATAAAA
1 CCAAA-AATAAATAAAATAAAA
36162869 TTTTATTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.74, C:0.12, G:0.00, T:0.14
Consensus pattern (22 bp):
CCAAAAATAAATAAAATAAAAC
Found at i:36176678 original size:49 final size:49
Alignment explanation
Indices: 36176505--36176989 Score: 326
Period size: 49 Copynumber: 9.9 Consensus size: 49
36176495 CATTACCATG
* * * *
36176505 AAGGGAAAGATTTAAGCCGCAATGACGAATCCAGTACCACGAAAATACA
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACA
* * * * * ** **
36176554 AAGGAAAAGGTTTAAGTCGCAACGGCAAACCTTA-TACC-TTAAGGGACA
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATC-TAGTACCACGAAGATACA
* *
36176602 TGAAGGAAAAGATTCAAGCCGCAACGGCGAATCTAGTACCACGAAGATACA
1 --AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACA
* * * * * * *
36176653 AAGGGAACGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCAT--G
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCAC-GAAG-ATACA
* * *
36176702 AAGGGAAAGATTTAAGCCACAATGGTGAATCTAGTACCACGAAGATACA
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACA
* ** * * *
36176751 AAGGGAAATG-TTTAGGTTGCAACGGCGAACCTTGTACCTC-AA-A-AGCA
1 AAGGGAAA-GATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATA-CA
* * *
36176798 TGAAGGGAAAGATTTAAGCCGTAACAGCGAATCTATTACCACGAAGATACA
1 --AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACA
* ** * * ** * * *
36176849 AAGGGAAAGGTTTAAGTTGCAACGGCAAACCTTTTACCTCAGAACAT-GA
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCAC-GAAGATACA
* * * * * * *
36176898 AA-GAAAAAATTTAAGCCGCAACGGCGAATTTAGTACCATGCAGACACG
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACA
* *
36176946 AAGGGAAAGATTCAAGCCGCAAC-GCGAATCTAGTACCGCGAAGA
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGA
36176990 CATTATAACC
Statistics
Matches: 322, Mismatches: 94, Indels: 41
0.70 0.21 0.09
Matches are distributed among these distances:
46 1 0.00
47 8 0.02
48 56 0.17
49 202 0.63
50 43 0.13
51 11 0.03
52 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.18
Consensus pattern (49 bp):
AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACA
Found at i:36176750 original size:98 final size:98
Alignment explanation
Indices: 36176501--36176969 Score: 582
Period size: 98 Copynumber: 4.8 Consensus size: 98
36176491 GTTTCATTAC
* * * * *
36176501 CATGAAGGGAAAGATTTAAGCCGCAATGACGAATCCAGTACCACGAAAATACAAAGGAAAAGGTT
1 CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACAAAGGGAAAGGTT
* * *
36176566 TAAGTCGCAACGGCAAACCTTATACCTTA-AGGG
66 TAAGTCGCAACGGCAAACCTTGTACCTCAGA-AG
* * *
36176599 ACATGAAGGAAAAGATTCAAGCCGCAACGGCGAATCTAGTACCACGAAGATACAAAGGGAACGGT
1 -CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACAAAGGGAAAGGT
*
36176664 TTAAGTCGCAACGGCGAACCTTGTACCTCAGAAG
65 TTAAGTCGCAACGGCAAACCTTGTACCTCAGAAG
* * * *
36176698 CATGAAGGGAAAGATTTAAGCCACAATGGTGAATCTAGTACCACGAAGATACAAAGGGAAATGTT
1 CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACAAAGGGAAAGGTT
* * * *
36176763 TAGGTTGCAACGGCGAACCTTGTACCTCAAAAG
66 TAAGTCGCAACGGCAAACCTTGTACCTCAGAAG
* * *
36176796 CATGAAGGGAAAGATTTAAGCCGTAACAGCGAATCTATTACCACGAAGATACAAAGGGAAAGGTT
1 CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACAAAGGGAAAGGTT
* *
36176861 TAAGTTGCAACGGCAAACCTTTTACCTCAGAA-
66 TAAGTCGCAACGGCAAACCTTGTACCTCAGAAG
* * * * * * * * *
36176893 CATGAAAGAAAAAATTTAAGCCGCAACGGCGAATTTAGTACCATGCAGACACGAAGGGAAAGATT
1 CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACAAAGGGAAAGGTT
* *
36176958 CAAGCCGCAACG
66 TAAGTCGCAACG
36176970 CGAATCTAGT
Statistics
Matches: 321, Mismatches: 48, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
97 62 0.19
98 174 0.54
99 84 0.26
100 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (98 bp):
CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGATACAAAGGGAAAGGTT
TAAGTCGCAACGGCAAACCTTGTACCTCAGAAG
Found at i:36182372 original size:18 final size:18
Alignment explanation
Indices: 36182349--36182389 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
36182339 CACAGTCGTG
36182349 TGGCCCACACGACATAAT
1 TGGCCCACACGACATAAT
*
36182367 TGGCCCACACGACCTAAT
1 TGGCCCACACGACATAAT
36182385 TGGCC
1 TGGCC
36182390 TAGACCGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.37, G:0.20, T:0.17
Consensus pattern (18 bp):
TGGCCCACACGACATAAT
Found at i:36183485 original size:44 final size:44
Alignment explanation
Indices: 36183413--36183592 Score: 252
Period size: 44 Copynumber: 4.1 Consensus size: 44
36183403 GGGGTGTCAC
* * *
36183413 ATGCTCCGATATGAAGTCTAATATGCTATGATATGTTATAAGTT
1 ATGCTCCGTTATGAAATCTGATATGCTATGATATGTTATAAGTT
* *
36183457 ATACTCCATTATGAAATCTGATATGCTATGATATGTTATAAGTT
1 ATGCTCCGTTATGAAATCTGATATGCTATGATATGTTATAAGTT
* * *
36183501 ATGCTCCGTTATGAAATTTGGTATGCTATGATATGTTATAAGAT
1 ATGCTCCGTTATGAAATCTGATATGCTATGATATGTTATAAGTT
* * * *
36183545 ATGCACCGTTATGAAATTTGATATGCTATGATATGTTGTAAGAT
1 ATGCTCCGTTATGAAATCTGATATGCTATGATATGTTATAAGTT
36183589 ATGC
1 ATGC
36183593 ACAAATATGA
Statistics
Matches: 123, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 123 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (44 bp):
ATGCTCCGTTATGAAATCTGATATGCTATGATATGTTATAAGTT
Found at i:36183503 original size:22 final size:22
Alignment explanation
Indices: 36183433--36183592 Score: 74
Period size: 22 Copynumber: 7.3 Consensus size: 22
36183423 ATGAAGTCTA
36183433 ATATGCTATGATATGTTATAAG
1 ATATGCTATGATATGTTATAAG
* * ** **
36183455 TTATACTCCAT--TATGAAATCTG
1 ATATGCT--ATGATATGTTATAAG
36183477 ATATGCTATGATATGTTATAAG
1 ATATGCTATGATATGTTATAAG
* ** * ** **
36183499 TTATGCTCCGTTATGAAATTTG
1 ATATGCTATGATATGTTATAAG
*
36183521 GTATGCTATGATATGTTATAAG
1 ATATGCTATGATATGTTATAAG
* * ** **
36183543 ATATGC-ACCGTTATGAAATTTG
1 ATATGCTA-TGATATGTTATAAG
*
36183565 ATATGCTATGATATGTTGTAAG
1 ATATGCTATGATATGTTATAAG
36183587 ATATGC
1 ATATGC
36183593 ACAAATATGA
Statistics
Matches: 90, Mismatches: 42, Indels: 12
0.62 0.29 0.08
Matches are distributed among these distances:
20 2 0.02
21 1 0.01
22 84 0.93
23 1 0.01
24 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (22 bp):
ATATGCTATGATATGTTATAAG
Found at i:36183602 original size:44 final size:44
Alignment explanation
Indices: 36183433--36183610 Score: 239
Period size: 44 Copynumber: 4.0 Consensus size: 44
36183423 ATGAAGTCTA
* * * *
36183433 ATATGCTATGATATGTTATAAGTTATACTCCATTATGAAATCTG
1 ATATGCTATGATATGTTATAAGATATGCACCATTATGAAATTTG
* * *
36183477 ATATGCTATGATATGTTATAAGTTATGCTCCGTTATGAAATTTG
1 ATATGCTATGATATGTTATAAGATATGCACCATTATGAAATTTG
* *
36183521 GTATGCTATGATATGTTATAAGATATGCACCGTTATGAAATTTG
1 ATATGCTATGATATGTTATAAGATATGCACCATTATGAAATTTG
* * * *
36183565 ATATGCTATGATATGTTGTAAGATATGCACAAATATGAAATATG
1 ATATGCTATGATATGTTATAAGATATGCACCATTATGAAATTTG
36183609 AT
1 AT
36183611 GTATGTTTTA
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 122 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.39
Consensus pattern (44 bp):
ATATGCTATGATATGTTATAAGATATGCACCATTATGAAATTTG
Found at i:36184381 original size:47 final size:47
Alignment explanation
Indices: 36184330--36184423 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
36184320 AGACATGAAG
36184330 GGCATAGTCTCAAGACATGGTCTTATGTCTCAAAATTTCAAGTCAGT
1 GGCATAGTCTCAAGACATGGTCTTATGTCTCAAAATTTCAAGTCAGT
36184377 GGCATAGTCTCAAGACATGGTCTTATGTCTCAAAATTTCAAGTCAGT
1 GGCATAGTCTCAAGACATGGTCTTATGTCTCAAAATTTCAAGTCAGT
36184424 AGCTAAATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (47 bp):
GGCATAGTCTCAAGACATGGTCTTATGTCTCAAAATTTCAAGTCAGT
Found at i:36199327 original size:18 final size:19
Alignment explanation
Indices: 36199287--36199329 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
36199277 TTAAAAGCTT
* *
36199287 GAAGATGATAAAAATAGTT
1 GAAGTTGATAAAAATAGTG
*
36199306 GAAGTTGAT-AAAATGGTG
1 GAAGTTGATAAAAATAGTG
36199324 GAAGTT
1 GAAGTT
36199330 TTGTACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (19 bp):
GAAGTTGATAAAAATAGTG
Found at i:36200813 original size:15 final size:15
Alignment explanation
Indices: 36200793--36200822 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36200783 ATTTATTTTG
*
36200793 TTTTAAAAAATTAAA
1 TTTTAAAAAAATAAA
36200808 TTTTAAAAAAATAAA
1 TTTTAAAAAAATAAA
36200823 GATAACATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTTAAAAAAATAAA
Found at i:36201733 original size:20 final size:20
Alignment explanation
Indices: 36201708--36201749 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
36201698 ACACCATTCC
*
36201708 AAACAACAAAATAAAAATAA
1 AAACAACAAAACAAAAATAA
* *
36201728 AAACAACACAACAAAAGTAA
1 AAACAACAAAACAAAAATAA
36201748 AA
1 AA
36201750 TAAACGAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.76, C:0.14, G:0.02, T:0.07
Consensus pattern (20 bp):
AAACAACAAAACAAAAATAA
Found at i:36206018 original size:21 final size:21
Alignment explanation
Indices: 36205970--36206021 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
36205960 CTACCCTGTA
*
36205970 CTTCTACCGATACATGCATGG
1 CTTCTATCGATACATGCATGG
36205991 CTTCTATCGATACATGCATGG
1 CTTCTATCGATACATGCATGG
36206012 CTTCTATCGA
1 CTTCTATCGA
36206022 AATAAGTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (21 bp):
CTTCTATCGATACATGCATGG
Found at i:36207606 original size:20 final size:20
Alignment explanation
Indices: 36207570--36207614 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
36207560 TCATTAAGGT
*
36207570 TTAATTAATCTCTTTTAATC
1 TTAATTAAGCTCTTTTAATC
*
36207590 TTAATTAAGC-CTATTTACTC
1 TTAATTAAGCTCT-TTTAATC
36207610 TTAAT
1 TTAAT
36207615 ACAAATCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.31, C:0.16, G:0.02, T:0.51
Consensus pattern (20 bp):
TTAATTAAGCTCTTTTAATC
Found at i:36211235 original size:21 final size:20
Alignment explanation
Indices: 36211210--36211248 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
36211200 TGTTTAAATC
36211210 AAGAAAAAATACAAAAAAAAG
1 AAGAAAAAATA-AAAAAAAAG
36211231 AAGAAAAAATAAAAAAAA
1 AAGAAAAAATAAAAAAAA
36211249 TAGAGAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.85, C:0.03, G:0.08, T:0.05
Consensus pattern (20 bp):
AAGAAAAAATAAAAAAAAAG
Found at i:36211709 original size:42 final size:41
Alignment explanation
Indices: 36211674--36212063 Score: 342
Period size: 42 Copynumber: 9.0 Consensus size: 41
36211664 ATTTGAAGGT
*
36211674 CCAGGTGCGGAGGTCCATTTACTTTTCATCTCATTTAGAGG
1 CCAGGTGTGGAGGTCCATTTACTTTTCATCTCATTTAGAGG
* * * *
36211715 CTCAGGTATGGAGGCCCATTTACTTTTCATCACATTCAGAGG
1 C-CAGGTGTGGAGGTCCATTTACTTTTCATCTCATTTAGAGG
36211757 CCCAGGTGTGGAGGTCCATTTACTTTTCAT-TGCATTTAGAGG
1 -CCAGGTGTGGAGGTCCATTTACTTTTCATCT-CATTTAGAGG
*
36211799 CCTAGGTGTGAAGGTCCATTTACTTTTCATTTACTTTTCATTGTATTTAGAGG
1 CC-AGGTGTGGAGGTCCATTTACTTTTCA--T-C---TC-----ATTTAGAGG
* * *
36211852 CTTAGGTGTGGAGGCCCATTTACTTTTCGT-TGCATTTAGAGG
1 C-CAGGTGTGGAGGTCCATTTACTTTTCATCT-CATTTAGAGG
* *
36211894 CCCAGGTGTGGAGGCCCATTTACTTTTCGT-TGCATTTAGAGG
1 -CCAGGTGTGGAGGTCCATTTACTTTTCATCT-CATTTAGAGG
* *
36211936 CCCAGGTGTAGAGGCCCATTTACTTTTCAT-TGCATTTAGAGG
1 -CCAGGTGTGGAGGTCCATTTACTTTTCATCT-CATTTAGAGG
* * *
36211978 CCTAAGTGTGGAGGCCCATTTACTTTTCGT-TGCATTTAGAGG
1 CC-AGGTGTGGAGGTCCATTTACTTTTCATCT-CATTTAGAGG
* * *
36212020 CTCAAGTGTGGAGGTCCATTTATTTTTCAT-TGCAATTAGAGG
1 C-CAGGTGTGGAGGTCCATTTACTTTTCATCT-CATTTAGAGG
36212062 CC
1 CC
36212064 TAAGCATAAA
Statistics
Matches: 304, Mismatches: 24, Indels: 42
0.82 0.06 0.11
Matches are distributed among these distances:
41 6 0.02
42 256 0.84
43 3 0.01
44 1 0.00
46 1 0.00
47 1 0.00
48 1 0.00
49 1 0.00
51 1 0.00
53 33 0.11
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (41 bp):
CCAGGTGTGGAGGTCCATTTACTTTTCATCTCATTTAGAGG
Found at i:36211797 original size:84 final size:84
Alignment explanation
Indices: 36211674--36212065 Score: 437
Period size: 84 Copynumber: 4.5 Consensus size: 84
36211664 ATTTGAAGGT
* *
36211674 CCAGGTGCGGAGGTCCATTTACTTTTCATCT-CATTTAGAGG-CTCAGGTATGGAGGCCCATTTA
1 CCAGGTGTGGAGGTCCATTTACTTTTCAT-TGCATTTAGAGGCCT-AGGTGTGGAGGCCCATTTA
*
36211737 CTTTTCATCACATTCAGAGGC
64 CTTTTCATCACATTTAGAGGC
* *
36211758 CCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGGTGTGAAGGTCCATTTACT
1 CCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGGTGTGGAGGCCCATTTACT
*
36211823 TTTCATTTACTTTTCATTGTATTTAGAGGC
66 TTTC----A----TCA---CATTTAGAGGC
** * * *
36211853 TTAGGTGTGGAGGCCCATTTACTTTTCGTTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACT
1 CCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGGTGTGGAGGCCCATTTACT
* **
36211918 TTTCGTTGCATTTAGAGGC
66 TTTCATCACATTTAGAGGC
* * *
36211937 CCAGGTGTAGAGGCCCATTTACTTTTCATTGCATTTAGAGGCCTAAGTGTGGAGGCCCATTTACT
1 CCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGGTGTGGAGGCCCATTTACT
* **
36212002 TTTCGTTGCATTTAGAGGC
66 TTTCATCACATTTAGAGGC
* * * *
36212021 TCAAGTGTGGAGGTCCATTTATTTTTCATTGCAATTAGAGGCCTA
1 CCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTA
36212066 AGCATAAAGG
Statistics
Matches: 266, Mismatches: 29, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
83 1 0.00
84 187 0.70
85 2 0.01
87 1 0.00
88 1 0.00
92 3 0.01
95 71 0.27
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (84 bp):
CCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGGTGTGGAGGCCCATTTACT
TTTCATCACATTTAGAGGC
Found at i:36211831 original size:11 final size:11
Alignment explanation
Indices: 36211815--36211840 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
36211805 TGTGAAGGTC
36211815 CATTTACTTTT
1 CATTTACTTTT
36211826 CATTTACTTTT
1 CATTTACTTTT
36211837 CATT
1 CATT
36211841 GTATTTAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (11 bp):
CATTTACTTTT
Found at i:36211835 original size:53 final size:53
Alignment explanation
Indices: 36211773--36211879 Score: 178
Period size: 53 Copynumber: 2.0 Consensus size: 53
36211763 TGTGGAGGTC
*
36211773 CATTTACTTTTCATTGCATTTAGAGGCCTAGGTGTGAAGGTCCATTTACTTTT
1 CATTTACTTTTCATTGCATTTAGAGGCCTAGGTGTGAAGGCCCATTTACTTTT
* * *
36211826 CATTTACTTTTCATTGTATTTAGAGGCTTAGGTGTGGAGGCCCATTTACTTTT
1 CATTTACTTTTCATTGCATTTAGAGGCCTAGGTGTGAAGGCCCATTTACTTTT
36211879 C
1 C
36211880 GTTGCATTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.44
Consensus pattern (53 bp):
CATTTACTTTTCATTGCATTTAGAGGCCTAGGTGTGAAGGCCCATTTACTTTT
Found at i:36211957 original size:179 final size:179
Alignment explanation
Indices: 36211676--36212005 Score: 518
Period size: 179 Copynumber: 1.8 Consensus size: 179
36211666 TTGAAGGTCC
* *
36211676 AGGTGCGGAGGTCCATTTACTTTTCATCTCATTTAGAGGCTCAGGTATGGAGGCCCATTTACTTT
1 AGGTGCGGAGGCCCATTTACTTTTCATCTCATTTAGAGGCCCAGGTATGGAGGCCCATTTACTTT
* * *
36211741 TCATCACATTCAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCTAGGT
66 TCATCACATTCAGAGGCCCAGGTGTAGAGGCCCATTTACTTTTCATTGCATTTAGAGGCCTAAGT
*
36211806 GTGAAGGTCCATTTACTTTTCATTTACTTTTCATTGTATTTAGAGGCTT
131 GTGAAGGCCCATTTACTTTTCATTTACTTTTCATTGTATTTAGAGGCTT
* * *
36211855 AGGTGTGGAGGCCCATTTACTTTTCGT-TGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
1 AGGTGCGGAGGCCCATTTACTTTTCATCT-CATTTAGAGGCCCAGGTATGGAGGCCCATTTACTT
* ** *
36211919 TTCGTTGCATTTAGAGGCCCAGGTGTAGAGGCCCATTTACTTTTCATTGCATTTAGAGGCCTAAG
65 TTCATCACATTCAGAGGCCCAGGTGTAGAGGCCCATTTACTTTTCATTGCATTTAGAGGCCTAAG
*
36211984 TGTGGAGGCCCATTTACTTTTC
130 TGTGAAGGCCCATTTACTTTTC
36212006 GTTGCATTTA
Statistics
Matches: 136, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
178 1 0.01
179 135 0.99
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (179 bp):
AGGTGCGGAGGCCCATTTACTTTTCATCTCATTTAGAGGCCCAGGTATGGAGGCCCATTTACTTT
TCATCACATTCAGAGGCCCAGGTGTAGAGGCCCATTTACTTTTCATTGCATTTAGAGGCCTAAGT
GTGAAGGCCCATTTACTTTTCATTTACTTTTCATTGTATTTAGAGGCTT
Found at i:36212053 original size:126 final size:126
Alignment explanation
Indices: 36211826--36212063 Score: 395
Period size: 126 Copynumber: 1.9 Consensus size: 126
36211816 ATTTACTTTT
* * *
36211826 CATTTACTTTTCATTGTATTTAGAGGCTTAGGTGTGGAGGCCCATTTACTTTTCGTTGCATTTAG
1 CATTTACTTTTCATTGCATTTAGAGGCCTAAGTGTGGAGGCCCATTTACTTTTCGTTGCATTTAG
* * *
36211891 AGGCCCAGGTGTGGAGGCCCATTTACTTTTCGTTGCATTTAGAGGCCCAGGTGTAGAGGCC
66 AGGCCCAAGTGTGGAGGCCCATTTACTTTTCATTGCAATTAGAGGCCCAGGTGTAGAGGCC
36211952 CATTTACTTTTCATTGCATTTAGAGGCCTAAGTGTGGAGGCCCATTTACTTTTCGTTGCATTTAG
1 CATTTACTTTTCATTGCATTTAGAGGCCTAAGTGTGGAGGCCCATTTACTTTTCGTTGCATTTAG
* * *
36212017 AGGCTCAAGTGTGGAGGTCCATTTATTTTTCATTGCAATTAGAGGCC
66 AGGCCCAAGTGTGGAGGCCCATTTACTTTTCATTGCAATTAGAGGCC
36212064 TAAGCATAAA
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 103 1.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (126 bp):
CATTTACTTTTCATTGCATTTAGAGGCCTAAGTGTGGAGGCCCATTTACTTTTCGTTGCATTTAG
AGGCCCAAGTGTGGAGGCCCATTTACTTTTCATTGCAATTAGAGGCCCAGGTGTAGAGGCC
Found at i:36213477 original size:151 final size:149
Alignment explanation
Indices: 36212874--36213527 Score: 872
Period size: 147 Copynumber: 4.4 Consensus size: 149
36212864 AGTTTTGGTC
* * * *
36212874 TTTTTTAAACAATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAATAGTGATTTTTTTTAAAAAA
1 TTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGATTTTTATTAAAAAA
* *
36212939 AAAGAGACAGTTTATATTTTTAAAAATAAAAATATG-TTTTTAGTTATTTTAAAGAAAAAGTTTA
66 AAAGA-A-AGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTGATTTTAAAGAAAAAGTTTA
*
36213003 AATTTTTAAACAAAGTTTTGA
129 AATTTTTAAACAAAATTTTGA
* * **
36213024 TTTTTTTATCTATTTCGAAGTAAAAGTTTGTTTTTTTAAGTAAAATAGTGATTTTCT-TT-AAAA
1 TTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGATTTT-TATTAAAAA
* * * *
36213087 AAGAGAAAATTTATA-TTTTAAAAATAAAAATATGTTTTTTAGTTATTTTAAAGAAAAAGTTTAA
65 AAAAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTGATTTTAAAGAAAAAGTTTAA
*
36213151 ATTTTTAAATAAAATTTTGA
130 ATTTTTAAACAAAATTTTGA
* *
36213171 TTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAATTAGTGGTTTTTATTAAAAAA
1 TTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGATTTTTATT-AAAAA
** *
36213236 AAGAAGAAAGTTTAGATTTTTAAAAAATAAAAACCTGTTTTTTAGTGATTTTAAAGAAAAAAATT
65 AA-AAGAAAGTTTAGATTTTT-AAAAATAAAAATATGTTTTTTAGTGATTTTAAAG-AAAAAGTT
36213301 TAAATTTTTAAACAAAATTTT-A
127 TAAATTTTTAAACAAAATTTTGA
* *
36213323 TTTTTTTAATTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAATTA-TTATTTTTATTAACAA
1 TTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAA-TAGTGATTTTTATTAA-AA
* * * *
36213387 AGAAAGAAAGTTTAGATTTTTAAAAAATAAAAATCTATTTTTCAGTGATTTTAAAGAAAAAGTTT
64 AAAAAGAAAGTTTAGATTTTT-AAAAATAAAAATATGTTTTTTAGTGATTTTAAAGAAAAAGTTT
*
36213452 AAATTTTTAAATAAAATTTTGA
128 AAATTTTTAAACAAAATTTTGA
* * * * *
36213474 TTTTTTTAACTATTTTGAAATAAAATTTTTGATTTTGAAGT-AAATAATGATTTT
1 TTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGATTTT
36213528 CTTTTAATTC
Statistics
Matches: 450, Mismatches: 41, Indels: 26
0.87 0.08 0.05
Matches are distributed among these distances:
146 20 0.04
147 105 0.23
148 1 0.00
149 17 0.04
150 96 0.21
151 94 0.21
152 88 0.20
153 29 0.06
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.45
Consensus pattern (149 bp):
TTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGATTTTTATTAAAAAA
AAAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTGATTTTAAAGAAAAAGTTTAAA
TTTTTAAACAAAATTTTGA
Found at i:36215228 original size:20 final size:21
Alignment explanation
Indices: 36215188--36215235 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
36215178 AAAAATAAAG
* *
36215188 AATTTTTAAAGATATTTTTTT
1 AATTTTTAAAGATAATATTTT
36215209 AATTTTTAAA-ATAATATTTT
1 AATTTTTAAAGATAATATTTT
36215229 -ATTTTTA
1 AATTTTTA
36215236 TTTTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.28
20 8 0.32
21 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
AATTTTTAAAGATAATATTTT
Found at i:36219096 original size:18 final size:18
Alignment explanation
Indices: 36219065--36219106 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
36219055 CAATTGCACT
36219065 AAAT-AAAATGCAGTGAC
1 AAATAAAAATGCAGTGAC
*
36219082 AAATAAAAATTCAGTGAC
1 AAATAAAAATGCAGTGAC
*
36219100 AACTAAA
1 AAATAAA
36219107 TGCTATGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.19
Consensus pattern (18 bp):
AAATAAAAATGCAGTGAC
Found at i:36232058 original size:13 final size:14
Alignment explanation
Indices: 36232040--36232073 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
36232030 TAAAAAAATG
*
36232040 AGAAAAAG-AAGAA
1 AGAAAAAGAAAAAA
36232053 AGAAAAAGAAAAAA
1 AGAAAAAGAAAAAA
36232067 AGAAAAA
1 AGAAAAA
36232074 ATTGTTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AGAAAAAGAAAAAA
Found at i:36241542 original size:17 final size:17
Alignment explanation
Indices: 36241484--36241561 Score: 59
Period size: 18 Copynumber: 4.3 Consensus size: 17
36241474 TACTATACAT
36241484 ATAAGAATGCAAAT-ACAA
1 ATAA-AATGC-AATGACAA
* *
36241502 CTACAATGCAAATGCACTAA
1 ATAAAATGC-AATG-AC-AA
*
36241522 ATAAAATGCAGTGACAA
1 ATAAAATGCAATGACAA
36241539 ATAAAAATGCAATGACAA
1 AT-AAAATGCAATGACAA
*
36241557 CTAAA
1 ATAAA
36241562 TGTTATGCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
17 16 0.33
18 19 0.39
19 5 0.10
20 9 0.18
ACGTcount: A:0.55, C:0.15, G:0.12, T:0.18
Consensus pattern (17 bp):
ATAAAATGCAATGACAA
Found at i:36241547 original size:18 final size:18
Alignment explanation
Indices: 36241506--36241561 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
36241496 ATACAACTAC
36241506 AATGCAAATGCACTAAAT-AA
1 AATGC-AATG-AC-AAATAAA
*
36241526 AATGCAGTGACAAATAAA
1 AATGCAATGACAAATAAA
*
36241544 AATGCAATGACAACTAAA
1 AATGCAATGACAAATAAA
36241562 TGTTATGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 4 0.12
18 20 0.62
19 3 0.09
20 5 0.16
ACGTcount: A:0.55, C:0.14, G:0.12, T:0.18
Consensus pattern (18 bp):
AATGCAATGACAAATAAA
Found at i:36241996 original size:12 final size:12
Alignment explanation
Indices: 36241979--36242011 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
36241969 CTTCATTCTT
36241979 CTTCTCTTCTCC
1 CTTCTCTTCTCC
*
36241991 CTTCTCTTCTTC
1 CTTCTCTTCTCC
36242003 CTTCTCTTC
1 CTTCTCTTC
36242012 CTCATTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (12 bp):
CTTCTCTTCTCC
Found at i:36259032 original size:22 final size:22
Alignment explanation
Indices: 36259000--36259055 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
36258990 TCTTGAGACT
* * * *
36259000 TGTCTCGAGACATTAATCCTGA
1 TGTCTCAAGACATGAACCCTAA
36259022 TGTCTCAAGACATGAACCCTAA
1 TGTCTCAAGACATGAACCCTAA
36259044 TGTCTCAAGACA
1 TGTCTCAAGACA
36259056 ACCAACTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (22 bp):
TGTCTCAAGACATGAACCCTAA
Found at i:36262115 original size:19 final size:19
Alignment explanation
Indices: 36262091--36262127 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36262081 TGCTTTAATG
*
36262091 TGGTGTAGTACTAATTATA
1 TGGTGTACTACTAATTATA
*
36262110 TGGTGTACTACTAGTTAT
1 TGGTGTACTACTAATTAT
36262128 GCACTTAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (19 bp):
TGGTGTACTACTAATTATA
Found at i:36262198 original size:59 final size:59
Alignment explanation
Indices: 36262113--36262227 Score: 185
Period size: 59 Copynumber: 1.9 Consensus size: 59
36262103 AATTATATGG
* *
36262113 TGTACTACTAGTTATGCACTTAGACAATATTGTAGTTATCATGTGGCGTACTACTAATT
1 TGTAATACTAGTTATGCACTTAGACAATATTGTAGTTATCATGTGGCGTAATACTAATT
* * *
36262172 TGTAATACTAGTTATGCATTTGGACAATATTGTAGTTATCATGTGGTGTAATACTA
1 TGTAATACTAGTTATGCACTTAGACAATATTGTAGTTATCATGTGGCGTAATACTA
36262228 GTTATGCACT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (59 bp):
TGTAATACTAGTTATGCACTTAGACAATATTGTAGTTATCATGTGGCGTAATACTAATT
Found at i:36262224 original size:24 final size:24
Alignment explanation
Indices: 36262197--36262267 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 24
36262187 GCATTTGGAC
36262197 AATATTGTAGTTATCATGTGGTGT
1 AATATTGTAGTTATCATGTGGTGT
* * **
36262221 AATA--CTAGTTATGCACT-TAG-AA
1 AATATTGTAGTTAT-CA-TGTGGTGT
36262243 AATATTGTAGTTATCATGTGGTGT
1 AATATTGTAGTTATCATGTGGTGT
36262267 A
1 A
36262268 CTACTAATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
22 12 0.36
23 8 0.24
24 13 0.39
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (24 bp):
AATATTGTAGTTATCATGTGGTGT
Found at i:36262247 original size:46 final size:46
Alignment explanation
Indices: 36262172--36262273 Score: 168
Period size: 46 Copynumber: 2.2 Consensus size: 46
36262162 ACTACTAATT
* * *
36262172 TGTAATACTAGTTATGCATTTGGACAATATTGTAGTTATCATGTGG
1 TGTAATACTAGTTATGCACTTAGAAAATATTGTAGTTATCATGTGG
36262218 TGTAATACTAGTTATGCACTTAGAAAATATTGTAGTTATCATGTGG
1 TGTAATACTAGTTATGCACTTAGAAAATATTGTAGTTATCATGTGG
*
36262264 TGTACTACTA
1 TGTAATACTA
36262274 ATTTGTAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (46 bp):
TGTAATACTAGTTATGCACTTAGAAAATATTGTAGTTATCATGTGG
Found at i:36277310 original size:34 final size:34
Alignment explanation
Indices: 36277272--36277390 Score: 175
Period size: 34 Copynumber: 3.5 Consensus size: 34
36277262 GTTACAGTGT
* *
36277272 TTTGGTGTGTTGGATGGACTACCTCTTACAAGCA
1 TTTGGTGTGTTGGATGGACTAGCTCTTACGAGCA
* * *
36277306 TTTGGTGTGTTGGAGGGATTAGCTCTTACGGGCA
1 TTTGGTGTGTTGGATGGACTAGCTCTTACGAGCA
* *
36277340 TATGGTGTGTTGGTTGGACTAGCTCTTACGAGCA
1 TTTGGTGTGTTGGATGGACTAGCTCTTACGAGCA
36277374 TTTGGTGTGTTGGATGG
1 TTTGGTGTGTTGGATGG
36277391 TTACCCGTCT
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 73 1.00
ACGTcount: A:0.16, C:0.13, G:0.34, T:0.37
Consensus pattern (34 bp):
TTTGGTGTGTTGGATGGACTAGCTCTTACGAGCA
Found at i:36280138 original size:16 final size:16
Alignment explanation
Indices: 36280117--36280149 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36280107 AGTCCTTATA
*
36280117 AATTTATTCCTTTAAC
1 AATTTAGTCCTTTAAC
36280133 AATTTAGTCCTTTAAC
1 AATTTAGTCCTTTAAC
36280149 A
1 A
36280150 TAAAAATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.03, T:0.45
Consensus pattern (16 bp):
AATTTAGTCCTTTAAC
Found at i:36288715 original size:5 final size:5
Alignment explanation
Indices: 36288705--36288761 Score: 69
Period size: 5 Copynumber: 10.8 Consensus size: 5
36288695 ACTTCTTCTC
*
36288705 TCTTT TCTTT TTTCTT TCTTT TCTTT TCTTT TCCTTCT TCTTT TCTTT
1 TCTTT TCTTT TCT-TT TCTTT TCTTT TCTTT T-CTT-T TCTTT TCTTT
*
36288753 TCTCT TCTT
1 TCTTT TCTT
36288762 CTGTTTTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
5 33 0.73
6 10 0.22
7 2 0.04
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (5 bp):
TCTTT
Found at i:36288724 original size:16 final size:16
Alignment explanation
Indices: 36288700--36288752 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
36288690 GAACAACTTC
*
36288700 TTCTCTCTTTTCTTTT
1 TTCTTTCTTTTCTTTT
36288716 TTCTTTCTTTTCTTTT
1 TTCTTTCTTTTCTTTT
* *
36288732 CT-TTTC-CTTCTTCTT
1 TTCTTTCTTTTCTT-TT
36288747 TTCTTT
1 TTCTTT
36288753 TCTCTTCTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 19 0.61
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
TTCTTTCTTTTCTTTT
Found at i:36288748 original size:22 final size:21
Alignment explanation
Indices: 36288696--36288763 Score: 86
Period size: 21 Copynumber: 3.2 Consensus size: 21
36288686 GTTGGAACAA
*
36288696 CTTCTTC-TCTCTTTTCTTTT
1 CTTCTTCTTTTCTTTTCTTTT
36288716 -TTCTTTCTTTTCTTTTCTTTT
1 CTTC-TTCTTTTCTTTTCTTTT
*
36288737 CCTTCTTCTTTTCTTTTCTCTT
1 -CTTCTTCTTTTCTTTTCTTTT
36288759 CTTCT
1 CTTCT
36288764 GTTTTAATAC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 3 0.07
20 3 0.07
21 17 0.40
22 16 0.38
23 3 0.07
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (21 bp):
CTTCTTCTTTTCTTTTCTTTT
Found at i:36288760 original size:27 final size:26
Alignment explanation
Indices: 36288700--36288761 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 26
36288690 GAACAACTTC
* *
36288700 TTCTC-TCTTTTCTTTTTTCTTTCTT
1 TTCTCTTCTTTTCCTTCTTCTTTCTT
*
36288725 TTCTTTTCTTTTCCTTCTTCTTTTCTT
1 TTCTCTTCTTTTCCTTCTTC-TTTCTT
36288752 TTCTCTTCTT
1 TTCTCTTCTT
36288762 CTGTTTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 4 0.13
26 12 0.39
27 15 0.48
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (26 bp):
TTCTCTTCTTTTCCTTCTTCTTTCTT
Found at i:36288768 original size:15 final size:15
Alignment explanation
Indices: 36288696--36288768 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
36288686 GTTGGAACAA
36288696 CTTCTTCTCTCTTT-T
1 CTTCTTCTCT-TTTCT
*
36288711 CTT-TTTTC-TTTCT
1 CTTCTTCTCTTTTCT
* *
36288724 TTTCTTTTCTTTTCCTT
1 CTTCTTCTCTTTT-C-T
*
36288741 CTTCTTTTCTTTTCT
1 CTTCTTCTCTTTTCT
*
36288756 CTTCTTCTGTTTT
1 CTTCTTCTCTTTT
36288769 AATACCCACA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
12 3 0.06
13 3 0.06
14 9 0.19
15 18 0.38
16 2 0.04
17 13 0.27
ACGTcount: A:0.00, C:0.26, G:0.01, T:0.73
Consensus pattern (15 bp):
CTTCTTCTCTTTTCT
Found at i:36290556 original size:24 final size:25
Alignment explanation
Indices: 36290529--36290576 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
36290519 TGTAAAAACT
* *
36290529 AAAGAAACAAATTAA-AGTAAAATA
1 AAAGAAAAAAATTAACAGAAAAATA
36290553 AAAGAAAAAAATTAACAGAAAAAT
1 AAAGAAAAAAATTAACAGAAAAAT
36290577 TACAATAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.15
Consensus pattern (25 bp):
AAAGAAAAAAATTAACAGAAAAATA
Found at i:36294904 original size:18 final size:18
Alignment explanation
Indices: 36294883--36294931 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
36294873 GAACATGTGG
36294883 TTGCATCTGATTATATGA
1 TTGCATCTGATTATATGA
* * *
36294901 TTGCATTTGGTTCTATGA
1 TTGCATCTGATTATATGA
*
36294919 TCGCATCTGATTA
1 TTGCATCTGATTA
36294932 GGTTGATTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.22, C:0.14, G:0.18, T:0.45
Consensus pattern (18 bp):
TTGCATCTGATTATATGA
Found at i:36296165 original size:18 final size:17
Alignment explanation
Indices: 36296142--36296175 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
36296132 TTTAAAAGAA
36296142 AATCAACAAAAGATTAGT
1 AATCAACAAAAG-TTAGT
*
36296160 AATCAATAAAAGTTAG
1 AATCAACAAAAGTTAG
36296176 ACAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
AATCAACAAAAGTTAGT
Found at i:36302911 original size:30 final size:30
Alignment explanation
Indices: 36302780--36302930 Score: 125
Period size: 30 Copynumber: 5.1 Consensus size: 30
36302770 AAAAATGAAA
*
36302780 TTTTGGAAAGTTT-GGG-GCAAAAGCATAAT
1 TTTTGGAAAGTTTAGGGACCAAAA-CATAAT
* *
36302809 TTTTGGAAAGTTCGAGGG-CCAAATC-TAAAT
1 TTTTGGAAAGTT-TAGGGACCAAAACAT-AAT
* * * *
36302839 TTTTGGGAAGTTCGAGGG-TC-AAATATGAAT
1 TTTTGGAAAGTT-TAGGGACCAAAACAT-AAT
*
36302869 TTTTGGAAAGTTTAGGGATCAAAACATAAT
1 TTTTGGAAAGTTTAGGGACCAAAACATAAT
* *
36302899 TTTTGGATAGTTTAGGGGCCAAAACATAAT
1 TTTTGGAAAGTTTAGGGACCAAAACATAAT
36302929 TT
1 TT
36302931 CTAAATAAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
29 19 0.19
30 71 0.70
31 12 0.12
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.33
Consensus pattern (30 bp):
TTTTGGAAAGTTTAGGGACCAAAACATAAT
Found at i:36305115 original size:48 final size:48
Alignment explanation
Indices: 36305055--36305146 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
36305045 ATTAAGCTTT
* * *
36305055 GCTTCATTGTTTT-AGTCCACTTCCCTGTATTTCATCAGGAAGATGATC
1 GCTTCATCGTTTTGA-TCCACTTCCCTGTATCTCATCAAGAAGATGATC
*
36305103 GCTTCATCGTTTTGATCCACTTCTCTGTATCTCATCAAGAAGAT
1 GCTTCATCGTTTTGATCCACTTCCCTGTATCTCATCAAGAAGAT
36305147 AGGCATTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 38 0.97
49 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (48 bp):
GCTTCATCGTTTTGATCCACTTCCCTGTATCTCATCAAGAAGATGATC
Found at i:36305116 original size:124 final size:124
Alignment explanation
Indices: 36304618--36305662 Score: 1274
Period size: 124 Copynumber: 8.5 Consensus size: 124
36304608 TGTTGTAGCA
* * * * * *
36304618 TCATC-TTTTGGTCCTCTTCTCTGTATCTTATCAGGAAGAT-GGGGTTGGGAGTTTCACTCCCAT
1 TCATCATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACAT
* * * *
36304681 TGAGCTCTGCTTCATTGTTTTGGTCCTCTTCTCTGTATCTCAGCAGGAAGATG-TCCCCT
66 TGAGCTTTGCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGAT-CGCT
* * * * * * *
36304740 TCGT--TGTTTGATCCAGTTCTCTATATCACATCGGGAATAT-GGGGTTTGAAGTTTCACTCATA
1 TCATCAT-TTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACA
* * * * * * * *
36304802 CTGAACTTCGCTTCACT-ATTTGGTCCACTTCTCTGTATATCATTAGGAAGATGACCGCT
65 TTGAGCTTTGCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGATCGCT
* * * * * *
36304861 TCGT--TGTTTGATCCACTTCTCTATATCTCAACAAGAAGAT-GGGATTTGAAGTTTCACTCATA
1 TCATCAT-TTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACA
* * * * *
36304923 TTGAGCTTCGCTTCACT-ATTTGGTCCAGTTCTCTGTATCTCATCAGGAAGATGA-CTACT
65 TTGAGCTTTGCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGATC-GCT
* *
36304982 TCATCATTTTGATCCACTTCTCTGTATCTCATCAAGAAAATGGGGGTTTGAAGTTTCACTCACAT
1 TCATCATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACAT
* * * *
36305047 TAAGCTTTGCTTCATTGTTTTAGTCCACTTCCCTGTATTTCATCAGGAAGATGATCGCT
66 TGAGCTTTGCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGATCGCT
* * * **
36305106 TCATCGTTTTGATCCACTTCTCTGTATCTCATCAAGAAGATAGGCATTTGAAGTTTCACTCACAT
1 TCATCATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACAT
*
36305171 TGAG-TTTCGCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGA-CTGCT
66 TGAGCTTT-GCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGATC-GCT
* *
36305230 TCATCATTTTGATCCACTTCTCTGTATCTCATCAAGAAGATGAGGGTTTGAAGTTTCACTCACAT
1 TCATCATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACAT
* * *
36305295 TGAGCTTTGCTTCATTGTTTTGGTCCACTTCTCTATATCTCATAAGGAAGATGATCGGT
66 TGAGCTTTGCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGATCGCT
* *
36305354 TCATCATTTTGATCCACTTCTCTGTATCTCATTAGGAAGATGAGGGTTTGAAGTTTCACTCACAT
1 TCATCATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACAT
* * * *
36305419 TGAG-TTTCGCTTCATTATTTTGGTACACTTCTCTATATCTCATCAAGAAGATGATCGCT
66 TGAGCTTT-GCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGATCGCT
* * *
36305478 TTATCATTTTGATCCACTTCTCTATATCTCATCAGGAAGATGGGGGTTTTAAGTTTCACTCACAT
1 TCATCATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACAT
* * * *
36305543 TGAGCTTCGCTTCATTTTTTTGGTCCACTTCTCTGTAGCTCATCAGGAAGATGACCGCT
66 TGAGCTTTGCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGATCGCT
* * * * * *
36305602 TTATCGTTTTGATCCACTTCTTTGTATCTTATCAGGAAGATGGGGATTTGAAGTTTTACTC
1 TCATCATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTC
36305663 TACTTCACTA
Statistics
Matches: 811, Mismatches: 98, Indels: 26
0.87 0.10 0.03
Matches are distributed among these distances:
120 1 0.00
121 144 0.18
122 90 0.11
123 42 0.05
124 527 0.65
125 7 0.01
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (124 bp):
TCATCATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACAT
TGAGCTTTGCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGATCGCT
Found at i:36305250 original size:48 final size:48
Alignment explanation
Indices: 36305179--36305272 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 48
36305169 ATTGAGTTTC
** *
36305179 GCTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACT
1 GCTTCATCATTTTGATCCACTTCTCTGTATCTCATCAAGAAGATGACT
36305227 GCTTCATCATTTTGATCCACTTCTCTGTATCTCATCAAGAAGATGA
1 GCTTCATCATTTTGATCCACTTCTCTGTATCTCATCAAGAAGATGA
36305273 GGGTTTGAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (48 bp):
GCTTCATCATTTTGATCCACTTCTCTGTATCTCATCAAGAAGATGACT
Found at i:36305496 original size:48 final size:48
Alignment explanation
Indices: 36305425--36305519 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
36305415 ACATTGAGTT
* *
36305425 TCGCTTCATTATTTTGGTACACTTCTCTATATCTCATCAAGAAGATGA
1 TCGCTTCATCATTTTGATACACTTCTCTATATCTCATCAAGAAGATGA
* * *
36305473 TCGCTTTATCATTTTGATCCACTTCTCTATATCTCATCAGGAAGATG
1 TCGCTTCATCATTTTGATACACTTCTCTATATCTCATCAAGAAGATG
36305520 GGGGTTTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (48 bp):
TCGCTTCATCATTTTGATACACTTCTCTATATCTCATCAAGAAGATGA
Found at i:36305874 original size:220 final size:221
Alignment explanation
Indices: 36305484--36305882 Score: 606
Period size: 220 Copynumber: 1.8 Consensus size: 221
36305474 CGCTTTATCA
* *
36305484 TTTTGATCCACTTCTCTATATCTCATCAGGAAGATGGGGGTTTTAAGTTTCACTCACATTGAGCT
1 TTTTGATCCACTTCTCTATATCTCATCAGGAAGATGAGGGTTTGAAGTTTCACTCACATTGAGCT
* * * *
36305549 TCGCTTCATTTTTTTGGTCCACTTCTCTGTAGCTCATCAGGAAGATGACCGCTTTATCGTTTTGA
66 TCGCTTCATTGTTCTGGTCCACTTCTCTGTAGCTCATCAGGAAGATGACCGCTTCATCATTTTGA
* * *
36305614 TCCACTTCTTTGTATCTTATCAGGAAGATGGGGATTTGAAGTTTTACTCTACTTCACTATAACCT
131 TCCACTTCTCTGTATCTCATCAGGAAGATGGGGATTTGAAGTTTCACTCTACTTCACTATAACCT
36305679 TAGGGATGTTGAGCTTTGCTTCATTG
196 TAGGGATGTTGAGCTTTGCTTCATTG
*
36305705 TTTTGATCC-CTTTCTCTGTATCTCATCAGGAAGAT-AGGGTTTGAAGTTTCACTCACATTGAGC
1 TTTTGATCCAC-TTCTCTATATCTCATCAGGAAGATGAGGGTTTGAAGTTTCACTCACATTGAGC
* * * * *
36305768 TTCGCTTCATTGTTCTGGTCCATTTCTTTGTATCTCATCAGGAAGATGACTGCTTCATTATTTTG
65 TTCGCTTCATTGTTCTGGTCCACTTCTCTGTAGCTCATCAGGAAGATGACCGCTTCATCATTTTG
* *
36305833 CTCTACTTCTCTGTATCTCATCAGGAAGATGGTGG-TTTGAAGTTTCACTC
130 ATCCACTTCTCTGTATCTCATCAGGAAGATGG-GGATTTGAAGTTTCACTC
36305883 ATATTGAACT
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
220 125 0.79
221 34 0.21
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (221 bp):
TTTTGATCCACTTCTCTATATCTCATCAGGAAGATGAGGGTTTGAAGTTTCACTCACATTGAGCT
TCGCTTCATTGTTCTGGTCCACTTCTCTGTAGCTCATCAGGAAGATGACCGCTTCATCATTTTGA
TCCACTTCTCTGTATCTCATCAGGAAGATGGGGATTTGAAGTTTCACTCTACTTCACTATAACCT
TAGGGATGTTGAGCTTTGCTTCATTG
Found at i:36306109 original size:45 final size:44
Alignment explanation
Indices: 36305939--36306525 Score: 396
Period size: 45 Copynumber: 13.3 Consensus size: 44
36305929 AGATAATAGT
* * * * *
36305939 TTCAATATGCCCCTCTTGACTTAAGGGTAAAATATTGGATGATAGC
1 TTCAATCTGCCCCTCTTGAC-TAGGGGTAAAAGATTGAATG-TGGC
* * * * *
36305985 TTCAATCTACCTCC-CTTGACTTAGCGATAAAAGATTGGATGATGGG
1 TTCAATCTGCC-CCTCTTGAC-TAGGGGTAAAAGATTGAATG-TGGC
** *
36306031 TTCAATCTGCCATGTCTTGACTAGGGGTAAAAGATTAAAATGTGGC
1 TTCAATCTGCC-CCTCTTGACTAGGGGTAAAAGATT-GAATGTGGC
* *
36306077 TTCAATCTGCCCTTCTTGATTAGGGGTAAAAGATTGGAA-GATGGC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATT-GAATG-TGGC
*
36306122 TTCAATCTGTCCCTCTTGACTAGGGGTAAAAGATTGGAA---GGC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATT-GAATGTGGC
* * * * ** *
36306164 TTCAATCT--ACCTCATG-GTCGGGGTAAAAGATTGGACGGTGAC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATT-GAATGTGGC
* * * * *
36306206 TTTAATCTGCCCCTCATAACTAGGGGTAAAAGATTGGA--CGGC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGAATGTGGC
* * * ** * *
36306248 TTTAAT-TTCCCCT-TTAGATTAAAGGTAAAAGATAGGAATATGGC
1 TTCAATCTGCCCCTCTT-GACTAGGGGTAAAAGAT-TGAATGTGGC
* * * * * * *
36306292 TTTAACCTACCCCTCTAGATTAGGGGTAAAAGATTGGATGGTGAC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGAAT-GTGGC
* *
36306337 TTCAATCTGCCCCT-TTGACTAGGGGTAAAAGATTGGA--CGGC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGAATGTGGC
* * * *
36306378 TTCAATCTACCCCTCTAGATTAGGGGTAAAAGATAGGAATGTGGC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGAT-TGAATGTGGC
* *
36306423 TTCAATCTGCCCCTTTTGACTAGGGGTAAAAGAATCGAATGTGGC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAG-ATTGAATGTGGC
* * * * *
36306468 TTCAATTTTCTCCTCTTGATTAGGGGTAAAAGATTGGAA-GATGCC
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATT-GAATG-TGGC
*
36306513 TTTAATCTGCCCC
1 TTCAATCTGCCCC
36306526 ATGGTCGGGG
Statistics
Matches: 430, Mismatches: 87, Indels: 49
0.76 0.15 0.09
Matches are distributed among these distances:
39 17 0.04
40 7 0.02
41 34 0.08
42 47 0.11
43 2 0.00
44 43 0.10
45 194 0.45
46 75 0.17
47 11 0.03
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (44 bp):
TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGAATGTGGC
Found at i:36306214 original size:84 final size:87
Alignment explanation
Indices: 36305939--36306553 Score: 333
Period size: 86 Copynumber: 7.0 Consensus size: 87
36305929 AGATAATAGT
* * * * * *
36305939 TTCAATATGCCCCTCTTGACTTAAGGGTAAAATATTGGATGATAGCTTCAATCT-ACCTCCCTTG
1 TTCAATCTGCCCCTCTTGAC-TAGGGGTAAAAGATTGGA--A-GGCTTCAATCTGACCT-TCATG
* * * * **
36306003 ACTTAGCGATAAAAGATTGGATGATGGG
61 A-GTAGGGGTAAAAGATTGGAAGATGAC
** ** * *
36306031 TTCAATCTGCCATGTCTTGACTAGGGGTAAAAGATTAAAATGTGGCTTCAATCTGCCCTTCTTGA
1 TTCAATCTGCC-CCTCTTGACTAGGGGTAAAAGATTGGAA---GGCTTCAATCTGACCTTCATGA
* *
36306096 TTAGGGGTAAAAGATTGGAAGATGGC
62 GTAGGGGTAAAAGATTGGAAGATGAC
* *
36306122 TTCAATCTGTCCCTCTTGACTAGGGGTAAAAGATTGGAAGGCTTCAATCT-ACC-TCATG-GTCG
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGGAAGGCTTCAATCTGACCTTCATGAGTAG
* *
36306184 GGGTAAAAGATTGGACGGTGAC
66 GGGTAAAAGATTGGAAGATGAC
* * * * * * ** * * *
36306206 TTTAATCTGCCCCTCATAACTAGGGGTAAAAGATTGGACGGCTTTAATTTCCCCTTTA-GATTAA
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGGAAGGCTTCAATCTGACCTTCATGAGTAG
* * * *
36306270 AGGTAAAAGATAGGAATATGGC
66 GGGTAAAAGATTGGAAGATGAC
* * * * * * *
36306292 TTTAACCTACCCCTCTAGATTAGGGGTAAAAGATTGGATGGTGACTTCAATCTGCCCCTT--TGA
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGGA-AG-G-CTTCAATCTG-ACCTTCATGA
* *
36306355 CTAGGGGTAAAAGATTGGACG--G-C
62 GTAGGGGTAAAAGATTGGAAGATGAC
* * * * * *
36306378 TTCAATCTACCCCTCTAGATTAGGGGTAAAAGATAGGAATGTGGCTTCAATCTGCCCCTT-TTGA
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGGAA---GGCTTCAATCTG-ACCTTCATGA
* * * *
36306442 CTAGGGGTAAAAGAATCGAATG-TGGC
62 GTAGGGGTAAAAGATTGGAA-GATGAC
* * * * * *
36306468 TTCAATTTTCTCCTCTTGATTAGGGGTAAAAGATTGGAAGATGCCTTTAATCTG-CC-CCATG-G
1 TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGGAAG--G-CTTCAATCTGACCTTCATGAG
* *
36306530 TCGGGGTAAAAGATTGGATGATGA
63 TAGGGGTAAAAGATTGGAAGATGA
36306554 TGTAACTTCA
Statistics
Matches: 418, Mismatches: 81, Indels: 53
0.76 0.15 0.10
Matches are distributed among these distances:
84 64 0.15
85 7 0.02
86 106 0.25
87 52 0.12
88 7 0.02
89 26 0.06
90 74 0.18
91 32 0.08
92 40 0.10
93 10 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (87 bp):
TTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGGAAGGCTTCAATCTGACCTTCATGAGTAG
GGGTAAAAGATTGGAAGATGAC
Found at i:36306344 original size:131 final size:132
Alignment explanation
Indices: 36306049--36306505 Score: 432
Period size: 131 Copynumber: 3.5 Consensus size: 132
36306039 GCCATGTCTT
** * * *
36306049 GACTAGGGGTAAAAGATTAAAAT-GTGGCTTCAATCTGCCCTTCTTGATTAGGGGTAAAAGATTG
1 GACTAGGGGTAAAAGATT-GGATGGTGACTTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATT-
* ** * * ** * *
36306113 GAAGATGGCTTCAATCTGTCCCTCTTGACTAGGGGTAAAAGATTGG-A-A-GGCTTCAATCTA--
64 G--GACGGCTTCAATCTACCCCTCTAGATTAAAGGTAAAAGATAGGAATATGGCTTCAACCTACC
36306173 CCTC-A
127 CCTCTA
* * * * * *
36306178 TG-GTCGGGGTAAAAGATTGGACGGTGACTTTAATCTGCCCCTCATAACTAGGGGTAAAAGATTG
1 -GACTAGGGGTAAAAGATTGGATGGTGACTTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTG
* * * *
36306242 GACGGCTTTAAT-TTCCCCTTTAGATTAAAGGTAAAAGATAGGAATATGGCTTTAACCTACCCCT
65 GACGGCTTCAATCTACCCCTCTAGATTAAAGGTAAAAGATAGGAATATGGCTTCAACCTACCCCT
36306306 CTA
130 CTA
*
36306309 GATTAGGGGTAAAAGATTGGATGGTGACTTCAATCTGCCCCT-TTGACTAGGGGTAAAAGATTGG
1 GACTAGGGGTAAAAGATTGGATGGTGACTTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGG
** * * * *
36306373 ACGGCTTCAATCTACCCCTCTAGATTAGGGGTAAAAGATAGGAATGTGGCTTCAATCTGCCCCTT
66 ACGGCTTCAATCTACCCCTCTAGATTAAAGGTAAAAGATAGGAATATGGCTTCAACCTACCCCTC
*
36306438 TT
131 TA
* * * * * * *
36306440 GACTAGGGGTAAAAGAATCGAAT-GTGGCTTCAATTTTCTCCTCTTGATTAGGGGTAAAAGATTG
1 GACTAGGGGTAAAAG-ATTGGATGGTGACTTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTG
36306504 GA
65 GA
36306506 AGATGCCTTT
Statistics
Matches: 268, Mismatches: 48, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
125 22 0.08
126 11 0.04
127 1 0.00
128 12 0.04
129 48 0.18
130 36 0.13
131 111 0.41
132 27 0.10
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (132 bp):
GACTAGGGGTAAAAGATTGGATGGTGACTTCAATCTGCCCCTCTTGACTAGGGGTAAAAGATTGG
ACGGCTTCAATCTACCCCTCTAGATTAAAGGTAAAAGATAGGAATATGGCTTCAACCTACCCCTC
TA
Found at i:36306853 original size:49 final size:48
Alignment explanation
Indices: 36306800--36307090 Score: 207
Period size: 49 Copynumber: 5.9 Consensus size: 48
36306790 CTGCTTCTCT
36306800 ACATCTTCAGGGTATAAGAGTTACCATTGCGGCTTCAATCTTTCCCTTC
1 ACATCTTCAGGGTATAAGA-TTACCATTGCGGCTTCAATCTTTCCCTTC
* * * * * *
36306849 ACATCTTTAGGGTATAAGGTTTGCCATTGTGGCTTCCACCTTTCCC-TC
1 ACATCTTCAGGGTATAA-GATTACCATTGCGGCTTCAATCTTTCCCTTC
* * * *
36306897 TTCATCTTTAGGGTATAAGATTCACCGTTACGGCTTCAATCTTTCCCTTC
1 -ACATCTTCAGGGTATAAGATT-ACCATTGCGGCTTCAATCTTTCCCTTC
* * * * * * *
36306947 ACAT-TACTAAGGTATAAGGTTTACCGTTACGGCTTCAACCTTTCCCATC
1 ACATCTTC-AGGGTATAA-GATTACCATTGCGGCTTCAATCTTTCCCTTC
* * * *
36306996 ACATC-TCTATGGTATAAGATTCGCCATTCCGGCTTTAATCTCTT-CCTTC
1 ACATCTTC-AGGGTATAAGATT-ACCATTGCGGCTTCAATCT-TTCCCTTC
* ** *
36307045 ACATTCTT-ATGGTGCAAGATT-CGTCGTTGCGGCTTCAATCTTTCCC
1 ACA-TCTTCAGGGTATAAGATTAC--CATTGCGGCTTCAATCTTTCCC
36307091 ATCTTGTCTT
Statistics
Matches: 193, Mismatches: 35, Indels: 28
0.75 0.14 0.11
Matches are distributed among these distances:
47 1 0.01
48 11 0.06
49 170 0.88
50 10 0.05
51 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.37
Consensus pattern (48 bp):
ACATCTTCAGGGTATAAGATTACCATTGCGGCTTCAATCTTTCCCTTC
Found at i:36306910 original size:98 final size:98
Alignment explanation
Indices: 36306796--36307049 Score: 300
Period size: 98 Copynumber: 2.6 Consensus size: 98
36306786 CAATCTGCTT
* * * *
36306796 CTCTACATCTTCAGGGTATAAGAGTT-ACCATTGCGGCTTCAATCTTTCCCTTCACATCT-TTAG
1 CTCTACATCTTTAGGGTATAAGA-TTCACCATTACGGCTTCAATCTTTCCCTTCACAT-TACTAA
* ** *
36306859 GGTATAAGGTTTGCCATTGTGGCTTCCACCTTTCC
64 GGTATAAGGTTTACCATTACGGCTTCAACCTTTCC
* *
36306894 CTCTTCATCTTTAGGGTATAAGATTCACCGTTACGGCTTCAATCTTTCCCTTCACATTACTAAGG
1 CTCTACATCTTTAGGGTATAAGATTCACCATTACGGCTTCAATCTTTCCCTTCACATTACTAAGG
*
36306959 TATAAGGTTTACCGTTACGGCTTCAACCTTTCC
66 TATAAGGTTTACCATTACGGCTTCAACCTTTCC
* * * * *
36306992 CATC-ACATCTCTATGGTATAAGATTCGCCATTCCGGCTTTAATCTCTT-CCTTCACATT
1 C-TCTACATCTTTAGGGTATAAGATTCACCATTACGGCTTCAATCT-TTCCCTTCACATT
36307050 CTTATGGTGC
Statistics
Matches: 134, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
97 3 0.02
98 127 0.95
99 4 0.03
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (98 bp):
CTCTACATCTTTAGGGTATAAGATTCACCATTACGGCTTCAATCTTTCCCTTCACATTACTAAGG
TATAAGGTTTACCATTACGGCTTCAACCTTTCC
Found at i:36307078 original size:98 final size:99
Alignment explanation
Indices: 36306797--36307094 Score: 259
Period size: 98 Copynumber: 3.0 Consensus size: 99
36306787 AATCTGCTTC
* * *
36306797 TCTACATCT-TCAGGGTATAAGAGTT-ACCATTGCGGCTTCAATCTTTCCCTTCACATCT-TTAG
1 TCTACATCTCT-AGGGTATAAGA-TTCACCATTACGGCTTCAATCTTTCCCTTCACAT-TACTAA
* * ** * ** *
36306859 GGTATAAGGTTTGCCATTGTGGCTTCCACCTTTCCC-
63 GGTACAAGATTCACCGTTACGGCTTCAACCTTTCCCA
* * *
36306895 TCTTCATCTTTAGGGTATAAGATTCACCGTTACGGCTTCAATCTTTCCCTTCACATTACTAAGGT
1 TCTACATCTCTAGGGTATAAGATTCACCATTACGGCTTCAATCTTTCCCTTCACATTACTAAGGT
* * *
36306960 ATAAGGTTTACCGTTACGGCTTCAACCTTTCCCA
66 ACAAGATTCACCGTTACGGCTTCAACCTTTCCCA
* * * * *
36306994 TC-ACATCTCTATGGTATAAGATTCGCCATTCCGGCTTTAATCTCTT-CCTTCACATT-CTTATG
1 TCTACATCTCTAGGGTATAAGATTCACCATTACGGCTTCAATCT-TTCCCTTCACATTAC-TAAG
* ** * *
36307056 GTGCAAGATTCGTCGTTGCGGCTTCAATCTTTCCCA
64 GTACAAGATTCACCGTTACGGCTTCAACCTTTCCCA
36307092 TCT
1 TCT
36307095 TGTCTTCTAG
Statistics
Matches: 167, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
97 4 0.02
98 158 0.95
99 5 0.03
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.37
Consensus pattern (99 bp):
TCTACATCTCTAGGGTATAAGATTCACCATTACGGCTTCAATCTTTCCCTTCACATTACTAAGGT
ACAAGATTCACCGTTACGGCTTCAACCTTTCCCA
Found at i:36307973 original size:23 final size:23
Alignment explanation
Indices: 36307947--36307992 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
36307937 TCTCCTTTTT
36307947 CTTTTTCTTCTT-TTTTCTTTTCC
1 CTTTTTCTT-TTCTTTTCTTTTCC
36307970 CTTTTTCTTTTCTTTTCTTTTCC
1 CTTTTTCTTTTCTTTTCTTTTCC
36307993 TTTCTCTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (23 bp):
CTTTTTCTTTTCTTTTCTTTTCC
Found at i:36310763 original size:20 final size:20
Alignment explanation
Indices: 36310726--36310764 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36310716 GGGTTTCTCG
*
36310726 AAAAAAGTCAATGATCAACC
1 AAAAAAGTCAACGATCAACC
*
36310746 AAAAAAGTCAACGTTCAAC
1 AAAAAAGTCAACGATCAAC
36310765 GATTAATGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.21, G:0.10, T:0.15
Consensus pattern (20 bp):
AAAAAAGTCAACGATCAACC
Found at i:36310777 original size:21 final size:21
Alignment explanation
Indices: 36310752--36310799 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
36310742 AACCAAAAAA
* * *
36310752 GTCAACGTTCAACGATTAATG
1 GTCAACGATCAACGATCAACG
*
36310773 GTCAACGATCAACTATCAACG
1 GTCAACGATCAACGATCAACG
36310794 GTCAAC
1 GTCAAC
36310800 CGATTTGGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (21 bp):
GTCAACGATCAACGATCAACG
Found at i:36310873 original size:21 final size:21
Alignment explanation
Indices: 36310848--36310894 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
36310838 TGTTAGGCTT
36310848 GGTTTGGATCAAAAGGGTTTA
1 GGTTTGGATCAAAAGGGTTTA
* * *
36310869 GGTTTGGTTTAAAAGGGTTTG
1 GGTTTGGATCAAAAGGGTTTA
36310890 GGTTT
1 GGTTT
36310895 AAGCATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.02, G:0.36, T:0.40
Consensus pattern (21 bp):
GGTTTGGATCAAAAGGGTTTA
Found at i:36312328 original size:9 final size:9
Alignment explanation
Indices: 36312314--36312358 Score: 54
Period size: 9 Copynumber: 4.6 Consensus size: 9
36312304 CCCTGATTAG
36312314 TGTATATTT
1 TGTATATTT
36312323 TGTATATTT
1 TGTATATTT
36312332 TGTACTTAGTATT
1 TGTA--TA-T-TT
36312345 TGTATATTT
1 TGTATATTT
36312354 TGTAT
1 TGTAT
36312359 TGTCTCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 20 0.62
10 1 0.03
11 4 0.12
12 1 0.03
13 6 0.19
ACGTcount: A:0.22, C:0.02, G:0.13, T:0.62
Consensus pattern (9 bp):
TGTATATTT
Found at i:36317855 original size:66 final size:66
Alignment explanation
Indices: 36317749--36317880 Score: 212
Period size: 66 Copynumber: 2.0 Consensus size: 66
36317739 TGTAGGAGTT
* *
36317749 GTGCTAGGAAAACAAAAAGAGAAGGTATTTCACTCAATTTATTATTCTAGCAAAACTTTAATTGA
1 GTGCTAGGAAAACAAAAAGAGAAGGTAATTCACTCAATTTATTATGCTAGCAAAACTTTAATTGA
36317814 C
66 C
* *
36317815 GTGCTGGGATAACGAAAAA-AGAAGGTAATTCACTCAATTTATTATGCTAGCAAAACTTTAATTG
1 GTGCTAGGAAAAC-AAAAAGAGAAGGTAATTCACTCAATTTATTATGCTAGCAAAACTTTAATTG
36317879 AC
65 AC
36317881 ACGCAGGTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 56 0.92
67 5 0.08
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.30
Consensus pattern (66 bp):
GTGCTAGGAAAACAAAAAGAGAAGGTAATTCACTCAATTTATTATGCTAGCAAAACTTTAATTGA
C
Found at i:36321436 original size:27 final size:25
Alignment explanation
Indices: 36321396--36321452 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
36321386 AACTTGAGGA
*
36321396 GAAGAAGGAAAATAAGGAAGAGAAG
1 GAAGAAGGAAAATAAGGAAGAAAAG
**
36321421 GAAGAAGAGAAGAATATTGAAGAAAAG
1 GAAGAAG-GAA-AATAAGGAAGAAAAG
36321448 GAAGA
1 GAAGA
36321453 TGCTCCGACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 7 0.26
26 3 0.11
27 17 0.63
ACGTcount: A:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (25 bp):
GAAGAAGGAAAATAAGGAAGAAAAG
Found at i:36321877 original size:18 final size:18
Alignment explanation
Indices: 36321851--36321906 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
36321841 ATGCATAACA
*
36321851 TTTAGTTGTCATTGCATT
1 TTTATTTGTCATTGCATT
*
36321869 TTTATTTGTCACTGCA-T
1 TTTATTTGTCATTGCATT
36321886 TTTATTTAGTGCATTTGCATT
1 TTTATTT-GT-CA-TTGCATT
36321907 GTAGTTGCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 8 0.26
18 16 0.52
19 2 0.06
20 4 0.13
21 1 0.03
ACGTcount: A:0.18, C:0.12, G:0.14, T:0.55
Consensus pattern (18 bp):
TTTATTTGTCATTGCATT
Found at i:36330043 original size:24 final size:24
Alignment explanation
Indices: 36330014--36330061 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
36330004 GTTATTGCAA
*
36330014 ATTTTTCTATTAATTT-TTGTCTTTT
1 ATTTTACT-TTAATTTGTT-TCTTTT
36330039 ATTTTACTTTAATTTGTTTCTTT
1 ATTTTACTTTAATTTGTTTCTTT
36330062 AGTTTCTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.17, C:0.08, G:0.04, T:0.71
Consensus pattern (24 bp):
ATTTTACTTTAATTTGTTTCTTTT
Found at i:36343182 original size:15 final size:15
Alignment explanation
Indices: 36343164--36343214 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
36343154 AATAAAATAT
36343164 TATTATTTATTATAA
1 TATTATTTATTATAA
36343179 TATTA-TTATTAATTAA
1 TATTATTTATT-A-TAA
*
36343195 TATATATTT-TGATAA
1 TAT-TATTTATTATAA
36343210 TATTA
1 TATTA
36343215 AAAAAATCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
14 7 0.23
15 12 0.39
16 7 0.23
17 3 0.10
18 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TATTATTTATTATAA
Found at i:36343187 original size:21 final size:20
Alignment explanation
Indices: 36343160--36343202 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
36343150 TAATAATAAA
*
36343160 ATATTATTATTTATT-ATA-
1 ATATTATTATTAATTAATAT
36343178 ATATTATTATTAATTAATAT
1 ATATTATTATTAATTAATAT
36343198 ATATT
1 ATATT
36343203 TTGATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.64
19 3 0.14
20 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATTATTATTAATTAATAT
Found at i:36351175 original size:17 final size:18
Alignment explanation
Indices: 36351142--36351177 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
36351132 TATATTTTTC
36351142 CATGACATTGGTTTGTTGT
1 CATGACATT-GTTTGTTGT
36351161 CATGACATT-TTTGTTGT
1 CATGACATTGTTTGTTGT
36351178 TGCATTTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
19 9 0.53
ACGTcount: A:0.17, C:0.11, G:0.22, T:0.50
Consensus pattern (18 bp):
CATGACATTGTTTGTTGT
Found at i:36352565 original size:49 final size:49
Alignment explanation
Indices: 36352512--36352872 Score: 283
Period size: 49 Copynumber: 7.3 Consensus size: 49
36352502 GCCGTTGTGG
* * * * *
36352512 CTTAAATCTTTCCCTTTGTGCTTCTGAGGTACAAGGTTCGCCATTACGA
1 CTTAAACCTTTCCCTTTATGCTTCTGAGGTACAAGGTTCGTCGTTGCGA
* * * *
36352561 CTTAAACCTTTCCTTCCATTAT-CTTC-GTGGTAC-TGGATTCGTCGTTGCGG
1 CTTAAACCTTT-C--CCTTTATGCTTCTGAGGTACAAGG-TTCGTCGTTGCGA
* * * *
36352611 CTTCAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGTTGTTGCGA
1 CTTAAACCTTTCCCTTTATGCTTCTGAGGTACAAGGTTCGTCGTTGCGA
* * * * *
36352660 CTTAAACCTTTCCCTCTATTAT-CTTC-GCGGTAC-TGGATTCGCCGTTGTGG
1 CTTAAACCTTT-CC-CT-TTATGCTTCTGAGGTACAAGG-TTCGTCGTTGCGA
* * *
36352710 CTTAAATCTTTCCCTTCATGCTTTTGAGGTACAAGGTTCGTCGTTGCGA
1 CTTAAACCTTTCCCTTTATGCTTCTGAGGTACAAGGTTCGTCGTTGCGA
* * *
36352759 CTTAAACCTTTCCCTCCATTAT-CTTC-GCGGTAC-TGGATTCG-CTGTTGCGG
1 CTTAAACCTTTCCCT---TTATGCTTCTGAGGTACAAGG-TTCGTC-GTTGCGA
* * * *
36352809 CTTAAATCTTTCCCTTCATGCTTTTGAGGTACAAGGTTCGTCGTTGTGA
1 CTTAAACCTTTCCCTTTATGCTTCTGAGGTACAAGGTTCGTCGTTGCGA
36352858 CTTAAACCTTTCCCT
1 CTTAAACCTTTCCCT
36352873 CCATTATCTT
Statistics
Matches: 241, Mismatches: 48, Indels: 46
0.72 0.14 0.14
Matches are distributed among these distances:
47 11 0.05
48 12 0.05
49 105 0.44
50 89 0.37
51 13 0.05
52 11 0.05
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.39
Consensus pattern (49 bp):
CTTAAACCTTTCCCTTTATGCTTCTGAGGTACAAGGTTCGTCGTTGCGA
Found at i:36352661 original size:99 final size:99
Alignment explanation
Indices: 36352486--36352925 Score: 682
Period size: 99 Copynumber: 4.4 Consensus size: 99
36352476 TACAATGTCA
* * **
36352486 TCGTGGTACTTGATTCGCCGTTGTGGCTTAAATCTTTCCCTTTGTGCTTCTGAGGTACAAGGTTC
1 TCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
* * * *
36352551 GCCATTACGACTTAAACCTTTCCTTCCATTATCT
66 GTCGTTGCGACTTAAACCTTTCCCTCCATTATCT
* *
36352585 TCGTGGTACTGGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
1 TCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
* *
36352650 GTTGTTGCGACTTAAACCTTTCCCTCTATTATCT
66 GTCGTTGCGACTTAAACCTTTCCCTCCATTATCT
* * *
36352684 TCGCGGTACTGGATTCGCCGTTGTGGCTTAAATCTTTCCCTTCATGCTTTTGAGGTACAAGGTTC
1 TCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
36352749 GTCGTTGCGACTTAAACCTTTCCCTCCATTATCT
66 GTCGTTGCGACTTAAACCTTTCCCTCCATTATCT
* * *
36352783 TCGCGGTACTGGATTCGCTGTTGCGGCTTAAATCTTTCCCTTCATGCTTTTGAGGTACAAGGTTC
1 TCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
*
36352848 GTCGTTGTGACTTAAACCTTTCCCTCCATTATCT
66 GTCGTTGCGACTTAAACCTTTCCCTCCATTATCT
* * *
36352882 TCGTGGTACTGGATTCACTGTTGCGACTTAAATCTTTCCCTTCA
1 TCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCA
36352926 AGTCTTCATG
Statistics
Matches: 316, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 316 1.00
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (99 bp):
TCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTC
GTCGTTGCGACTTAAACCTTTCCCTCCATTATCT
Found at i:36368400 original size:23 final size:23
Alignment explanation
Indices: 36368371--36368414 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
36368361 AAGCAGATGA
*
36368371 AAAAGAAAAGGAAACTGAGAAGG
1 AAAAGAAAAAGAAACTGAGAAGG
*
36368394 AAAAGAAAAATAAACTGAGAA
1 AAAAGAAAAAGAAACTGAGAA
36368415 AGACAACACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.66, C:0.05, G:0.23, T:0.07
Consensus pattern (23 bp):
AAAAGAAAAAGAAACTGAGAAGG
Found at i:36369261 original size:19 final size:22
Alignment explanation
Indices: 36369237--36369276 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
36369227 TATTAAGTCT
36369237 ATAATT-ATA-AT-AAAATAAC
1 ATAATTAATATATCAAAATAAC
36369256 ATAATTAATATATCAAAATAA
1 ATAATTAATATATCAAAATAA
36369277 AAATACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 2 0.11
22 7 0.39
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAATTAATATATCAAAATAAC
Found at i:36370631 original size:56 final size:57
Alignment explanation
Indices: 36370563--36370688 Score: 170
Period size: 56 Copynumber: 2.2 Consensus size: 57
36370553 TATTGGGTCA
* *
36370563 AAAAGGTTTGGGTTATTGGGTTT-AA-G-TTTGGGTTTAAGGATTTTTTAAAGGATTT
1 AAAAGGTTTGGGTTATTGGGTTTAAAGGTTTTAGGTTTAAAGA-TTTTTAAAGGATTT
* *
36370618 AAAAGGATTTGGGTTATTGGGTTTAAAGGTTTTATGTTTAAAGATTTTTAAAGGGTTT
1 AAAAGG-TTTGGGTTATTGGGTTTAAAGGTTTTAGGTTTAAAGATTTTTAAAGGATTT
36370676 -AAAGGTTTGGGTT
1 AAAAGGTTTGGGTT
36370689 TTAAATGGGT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
55 6 0.10
56 25 0.40
57 7 0.11
58 14 0.22
59 11 0.17
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (57 bp):
AAAAGGTTTGGGTTATTGGGTTTAAAGGTTTTAGGTTTAAAGATTTTTAAAGGATTT
Found at i:36370690 original size:25 final size:26
Alignment explanation
Indices: 36370663--36370712 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
36370653 GTTTAAAGAT
*
36370663 TTTTAAA-GGGT-TTAAAGGTTTGGG
1 TTTTAAATGGGTAATAAAGGTTTGGG
*
36370687 TTTTAAATGGGTAATAAGGGTTTGGG
1 TTTTAAATGGGTAATAAAGGTTTGGG
36370713 CTTAGGCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 4 0.18
26 11 0.50
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (26 bp):
TTTTAAATGGGTAATAAAGGTTTGGG
Found at i:36374519 original size:7 final size:7
Alignment explanation
Indices: 36374507--36374561 Score: 60
Period size: 7 Copynumber: 8.1 Consensus size: 7
36374497 CGACCTGAAC
36374507 CCGTTGA
1 CCGTTGA
36374514 CCGTTGA
1 CCGTTGA
*
36374521 CTGTTGA
1 CCGTTGA
36374528 -CGTTGA
1 CCGTTGA
36374534 CCGTTGA
1 CCGTTGA
*
36374541 TCGTTGA
1 CCGTTGA
* *
36374548 -CTTTAA
1 CCGTTGA
36374554 CCGTTGA
1 CCGTTGA
36374561 C
1 C
36374562 TTTTTTTTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
6 9 0.23
7 30 0.77
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.35
Consensus pattern (7 bp):
CCGTTGA
Found at i:36374533 original size:20 final size:21
Alignment explanation
Indices: 36374508--36374562 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
36374498 GACCTGAACC
36374508 CGTTGACCGTTGACT-GTTGA
1 CGTTGACCGTTGACTCGTTGA
36374528 CGTTGACCGTTGA-TCGTTGA
1 CGTTGACCGTTGACTCGTTGA
* *
36374548 CTTTAACCGTTGACT
1 CGTTGACCGTTGACT
36374563 TTTTTTTAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.36
Consensus pattern (21 bp):
CGTTGACCGTTGACTCGTTGA
Found at i:36374558 original size:27 final size:27
Alignment explanation
Indices: 36374507--36374561 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
36374497 CGACCTGAAC
*
36374507 CCGTTGACCGTTGACTGTTGACGTTGA
1 CCGTTGACCGTTGACTGTTAACGTTGA
*
36374534 CCGTTGATCGTTGACT-TTAACCGTTGA
1 CCGTTGACCGTTGACTGTTAA-CGTTGA
36374561 C
1 C
36374562 TTTTTTTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.35
Consensus pattern (27 bp):
CCGTTGACCGTTGACTGTTAACGTTGA
Found at i:36381235 original size:27 final size:28
Alignment explanation
Indices: 36381194--36381287 Score: 113
Period size: 27 Copynumber: 3.5 Consensus size: 28
36381184 GATCGACCCA
*
36381194 TTGACCGTTGATCGTTGACCATTGACTG
1 TTGACCGTTGATCGTTGACCGTTGACTG
*
36381222 TTGA-CGTTGATCGTTGACCGTTGA-TA
1 TTGACCGTTGATCGTTGACCGTTGACTG
* * *
36381248 TTGACCATTGACCGTTGACTGTTGAC-G
1 TTGACCGTTGATCGTTGACCGTTGACTG
*
36381275 TTGACCATTGATC
1 TTGACCGTTGATC
36381288 ATTAACTTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.09
27 48 0.84
28 4 0.07
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.36
Consensus pattern (28 bp):
TTGACCGTTGATCGTTGACCGTTGACTG
Found at i:36381278 original size:20 final size:20
Alignment explanation
Indices: 36381191--36381286 Score: 104
Period size: 20 Copynumber: 4.8 Consensus size: 20
36381181 GTTGATCGAC
36381191 CCATTGACCGTTGATCGTTGA
1 CCATTGACCGTTGAT-GTTGA
* *
36381212 CCATTGACTGTTGACGTTGA
1 CCATTGACCGTTGATGTTGA
* * *
36381232 TCGTTGACCGTTGATATTGA
1 CCATTGACCGTTGATGTTGA
36381252 CCATTGACCGTTGACTGTTGA
1 CCATTGACCGTTGA-TGTTGA
* *
36381273 -CGTTGACCATTGAT
1 CCATTGACCGTTGAT
36381287 CATTAACTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
19 1 0.02
20 43 0.69
21 18 0.29
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (20 bp):
CCATTGACCGTTGATGTTGA
Found at i:36381303 original size:27 final size:27
Alignment explanation
Indices: 36381248--36381306 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
36381238 ACCGTTGATA
* *
36381248 TTGACCATTGACCGTTGACTGTTGACG
1 TTGACCATTGACCATTAACTGTTGACG
*
36381275 TTGACCATTGATCATTAACT-TTGACCG
1 TTGACCATTGACCATTAACTGTTGA-CG
36381302 TTGAC
1 TTGAC
36381307 TTTTTTTCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (27 bp):
TTGACCATTGACCATTAACTGTTGACG
Found at i:36381305 original size:7 final size:7
Alignment explanation
Indices: 36381194--36381285 Score: 82
Period size: 7 Copynumber: 13.6 Consensus size: 7
36381184 GATCGACCCA
36381194 TTGACCG
1 TTGACCG
*
36381201 TTGATCG
1 TTGACCG
*
36381208 TTGACCA
1 TTGACCG
*
36381215 TTGACTG
1 TTGACCG
36381222 TTGA-CG
1 TTGACCG
*
36381228 TTGATCG
1 TTGACCG
36381235 TTGACCG
1 TTGACCG
**
36381242 TTGA-TA
1 TTGACCG
*
36381248 TTGACCA
1 TTGACCG
36381255 TTGACCG
1 TTGACCG
*
36381262 TTGACTG
1 TTGACCG
36381269 TTGA-CG
1 TTGACCG
*
36381275 TTGACCA
1 TTGACCG
36381282 TTGA
1 TTGA
36381286 TCATTAACTT
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
6 14 0.21
7 54 0.79
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (7 bp):
TTGACCG
Found at i:36382489 original size:2 final size:2
Alignment explanation
Indices: 36382482--36382520 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
36382472 GGAAATTATT
*
36382482 TA TA TA TA TA TA TA TA TA TA TA TA -A T- TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36382521 GTGAATGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:36383806 original size:16 final size:18
Alignment explanation
Indices: 36383771--36383830 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
36383761 ATAGATATAA
36383771 AATAATAAATAATAATATT
1 AATAATAAAT-ATAATATT
36383790 AATAATAAAT-TAA-ATT
1 AATAATAAATATAATATT
*
36383806 -ATAAATAAATACACATA-T
1 AAT-AATAAATATA-ATATT
36383824 AATAATA
1 AATAATA
36383831 TTATTACTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
15 2 0.06
16 10 0.29
17 4 0.11
18 6 0.17
19 13 0.37
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAATAAATATAATATT
Found at i:36383812 original size:19 final size:19
Alignment explanation
Indices: 36383765--36383813 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
36383755 AAATTTATAG
36383765 ATATAAAATAATAAATAATA
1 ATAT-AAATAATAAATAATA
*
36383785 ATATTAATAATAAATTAA-A
1 ATATAAATAATAAA-TAATA
*
36383804 TTATAAATAA
1 ATATAAATAA
36383814 ATACACATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATATAAATAATAAATAATA
Found at i:36385892 original size:43 final size:43
Alignment explanation
Indices: 36385839--36385936 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 43
36385829 TCTGTTAATA
* * * *
36385839 TTAGTAGCGTTTGTG-GAAAAAGTGCCGCTAAAAACTATGTTCT
1 TTAGTGGCGTTTGTGAGAAAAA-CGCCACTAAAAACCATGTTCT
*
36385882 TTAGTGGCGTTTGTGAGAAAAACGCCACTAAAGACCATGTTCT
1 TTAGTGGCGTTTGTGAGAAAAACGCCACTAAAAACCATGTTCT
*
36385925 ATAGTGGCGTTT
1 TTAGTGGCGTTT
36385937 TTCCGCATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
43 42 0.88
44 6 0.12
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
TTAGTGGCGTTTGTGAGAAAAACGCCACTAAAAACCATGTTCT
Found at i:36388050 original size:17 final size:17
Alignment explanation
Indices: 36388028--36388065 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
36388018 CTTAGGAATG
*
36388028 AATTTTG-TTTTATTATT
1 AATTTTGATATTATT-TT
36388045 AATTTTGATATTATTTT
1 AATTTTGATATTATTTT
36388062 AATT
1 AATT
36388066 GTAACTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (17 bp):
AATTTTGATATTATTTT
Found at i:36388174 original size:41 final size:41
Alignment explanation
Indices: 36388099--36388178 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
36388089 TTTTATTGTA
* *
36388099 TTTTCAATTTGTTTGTTATTTTACGAATTGTTTTAATATCG
1 TTTTCAATTTGTTTGTTATTTTAAGAATTATTTTAATATCG
* * * *
36388140 TTTTTAATTTGTTTGTTGTTTTAATATTTATTTTAATAT
1 TTTTCAATTTGTTTGTTATTTTAAGAATTATTTTAATAT
36388179 TTTTAATTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.23, C:0.04, G:0.10, T:0.64
Consensus pattern (41 bp):
TTTTCAATTTGTTTGTTATTTTAAGAATTATTTTAATATCG
Found at i:36388199 original size:21 final size:21
Alignment explanation
Indices: 36388158--36388199 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
36388148 TTGTTTGTTG
* *
36388158 TTTTAATATTTATTTTAATAT
1 TTTTAATATATATTTGAATAT
36388179 TTTTAAT-TATATTTGATATAT
1 TTTTAATATATATTTGA-ATAT
36388200 CATATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTAATATATATTTGAATAT
Found at i:36399145 original size:7 final size:7
Alignment explanation
Indices: 36399133--36399180 Score: 96
Period size: 7 Copynumber: 6.9 Consensus size: 7
36399123 AAAGGTATGA
36399133 ATATATT
1 ATATATT
36399140 ATATATT
1 ATATATT
36399147 ATATATT
1 ATATATT
36399154 ATATATT
1 ATATATT
36399161 ATATATT
1 ATATATT
36399168 ATATATT
1 ATATATT
36399175 ATATAT
1 ATATAT
36399181 ATTATTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATATATT
Found at i:36399145 original size:9 final size:9
Alignment explanation
Indices: 36399146--36399185 Score: 53
Period size: 9 Copynumber: 4.1 Consensus size: 9
36399136 TATTATATAT
36399146 TATATATTA
1 TATATATTA
36399155 TATATTATATA
1 TATA-TAT-TA
36399166 TTATATATTA
1 -TATATATTA
36399176 TATATATTA
1 TATATATTA
36399185 T
1 T
36399186 TAAAAGCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 14 0.50
10 5 0.18
11 5 0.18
12 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TATATATTA
Found at i:36399158 original size:21 final size:21
Alignment explanation
Indices: 36399133--36399187 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
36399123 AAAGGTATGA
36399133 ATATATTATATATTATATATT
1 ATATATTATATATTATATATT
36399154 ATATATTATATATTATATATT
1 ATATATTATATATTATATATT
36399175 ATATA-TAT-TATTA
1 ATATATTATATATTA
36399188 AAAGCATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.15
20 3 0.09
21 26 0.76
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATATTATATATTATATATT
Found at i:36407602 original size:21 final size:21
Alignment explanation
Indices: 36407578--36407619 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
36407568 TCCTAGAGCA
* *
36407578 GTTTTAACTTGTTTGAAAATG
1 GTTTTAACATATTTGAAAATG
36407599 GTTTTAACATATTTGAAAATG
1 GTTTTAACATATTTGAAAATG
36407620 TTTATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (21 bp):
GTTTTAACATATTTGAAAATG
Found at i:36410492 original size:21 final size:20
Alignment explanation
Indices: 36410468--36410516 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
36410458 TCCTAGGGCA
*
36410468 GTTTTAACTTGTTTGAAAAT
1 GTTTTAACTTATTTGAAAAT
*
36410488 GGTTTTAACATATTTGAAAAT
1 -GTTTTAACTTATTTGAAAAT
36410509 G-TTTAACT
1 GTTTTAACT
36410517 CAATTGAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.24
20 1 0.04
21 18 0.72
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (20 bp):
GTTTTAACTTATTTGAAAAT
Found at i:36419409 original size:29 final size:29
Alignment explanation
Indices: 36419353--36419409 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
36419343 ACAATCATTG
* ***
36419353 TAATTTTTTTTAATTTATGTATTTTTTAA
1 TAATTTTTTTTAATTTATGGAAAATTTAA
*
36419382 TAATTTTTTTTAATTTGTGGAAAATTTA
1 TAATTTTTTTTAATTTATGGAAAATTTA
36419410 TTTAACTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (29 bp):
TAATTTTTTTTAATTTATGGAAAATTTAA
Found at i:36419445 original size:21 final size:22
Alignment explanation
Indices: 36419421--36419466 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
36419411 TTAACTTTCC
36419421 ATTTTTTTTATGA-TTTGTTAA
1 ATTTTTTTTATGATTTTGTTAA
* *
36419442 A-TTTTTTTGTGATTTTTTTAA
1 ATTTTTTTTATGATTTTGTTAA
36419463 ATTT
1 ATTT
36419467 GGTTGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 10 0.48
21 9 0.43
22 2 0.10
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.70
Consensus pattern (22 bp):
ATTTTTTTTATGATTTTGTTAA
Found at i:36419448 original size:20 final size:21
Alignment explanation
Indices: 36419423--36419466 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
36419413 AACTTTCCAT
36419423 TTTTTTTATGA-TTTGTTAAA
1 TTTTTTTATGATTTTGTTAAA
* *
36419443 TTTTTTTGTGATTTTTTTAAA
1 TTTTTTTATGATTTTGTTAAA
36419464 TTT
1 TTT
36419467 GGTTGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.70
Consensus pattern (21 bp):
TTTTTTTATGATTTTGTTAAA
Found at i:36419604 original size:18 final size:18
Alignment explanation
Indices: 36419583--36419617 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36419573 TTTTTTAAGA
36419583 ATTTTTC-TGATTTTTTTT
1 ATTTTTCTTG-TTTTTTTT
36419601 ATTTTTCTTGTTTTTTT
1 ATTTTTCTTGTTTTTTT
36419618 AAGTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.80
Consensus pattern (18 bp):
ATTTTTCTTGTTTTTTTT
Found at i:36427763 original size:2 final size:2
Alignment explanation
Indices: 36427758--36427815 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
36427748 ACACACACAC
36427758 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36427800 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
36427816 TCATGTAATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36433462 original size:27 final size:27
Alignment explanation
Indices: 36433427--36433485 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
36433417 AGATGGTTGT
36433427 CACAAGGGTCATTC-TCCTAAGGATTGC
1 CACAAGGGTCATTCTTCC-AAGGATTGC
36433454 CACAAGGGTCATTCTTCCAAGGATTGC
1 CACAAGGGTCATTCTTCCAAGGATTGC
36433481 CACAA
1 CACAA
36433486 AGGCTTTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 28 0.90
28 3 0.10
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (27 bp):
CACAAGGGTCATTCTTCCAAGGATTGC
Found at i:36433543 original size:28 final size:27
Alignment explanation
Indices: 36433479--36433568 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
36433469 TCCAAGGATT
* * *
36433479 GCCACAAAGGCTTTCATTTTTATATATC
1 GCCACAAAGGCTTCCA-TTTCATAGATC
36433507 GCCACAAAGGCTTCCATTTCATAGATC
1 GCCACAAAGGCTTCCATTTCATAGATC
* * *
36433534 TCCACAAAAG-TTCTCATTTCCTAGATC
1 GCCACAAAGGCTTC-CATTTCATAGATC
36433561 GCCACAAA
1 GCCACAAA
36433569 AGCTCTATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.06
27 36 0.67
28 15 0.28
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (27 bp):
GCCACAAAGGCTTCCATTTCATAGATC
Found at i:36433551 original size:27 final size:27
Alignment explanation
Indices: 36433504--36433578 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
36433494 ATTTTTATAT
*
36433504 ATCGCCACAAAGGCTTC-CATTTCATAG
1 ATCGCCACAAAAG-TTCTCATTTCATAG
* *
36433531 ATCTCCACAAAAGTTCTCATTTCCTAG
1 ATCGCCACAAAAGTTCTCATTTCATAG
*
36433558 ATCGCCACAAAAGCTCT-ATTT
1 ATCGCCACAAAAGTTCTCATTT
36433579 TTTGGCATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.17
27 35 0.83
ACGTcount: A:0.31, C:0.29, G:0.11, T:0.29
Consensus pattern (27 bp):
ATCGCCACAAAAGTTCTCATTTCATAG
Found at i:36441854 original size:29 final size:30
Alignment explanation
Indices: 36441787--36441854 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
36441777 ATTTCCATTT
* *
36441787 TTTTAATTTTTGAAAATTCTATTTTTATAA
1 TTTTAAATTTTAAAAATTCTATTTTTATAA
* * *
36441817 TTTTTAATTTTAAAAATT-TATTTTTCTAG
1 TTTTAAATTTTAAAAATTCTATTTTTATAA
36441846 TTTTAAATT
1 TTTTAAATT
36441855 ATTTTTTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 17 0.53
30 15 0.47
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (30 bp):
TTTTAAATTTTAAAAATTCTATTTTTATAA
Found at i:36441869 original size:20 final size:20
Alignment explanation
Indices: 36441846--36441887 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
36441836 ATTTTTCTAG
*
36441846 TTTTAAATTATT-TTTTAATA
1 TTTTAAA-TATTCATTTAATA
*
36441866 TTTTTAATATTCATTTAATA
1 TTTTAAATATTCATTTAATA
36441886 TT
1 TT
36441888 CATAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTAAATATTCATTTAATA
Found at i:36441888 original size:11 final size:11
Alignment explanation
Indices: 36441859--36441890 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
36441849 TAAATTATTT
36441859 TTTAATATT--
1 TTTAATATTCA
36441868 TTTAATATTCA
1 TTTAATATTCA
36441879 TTTAATATTCA
1 TTTAATATTCA
36441890 T
1 T
36441891 AATTTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTAATATTCA
Found at i:36457371 original size:18 final size:17
Alignment explanation
Indices: 36457348--36457383 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
36457338 AATAAACATG
*
36457348 ATTTAAGCTTAGATATCC
1 ATTTAAACTTAGAT-TCC
36457366 ATTTAAACTTAGATTCC
1 ATTTAAACTTAGATTCC
36457383 A
1 A
36457384 ACTCAAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (17 bp):
ATTTAAACTTAGATTCC
Found at i:36464991 original size:23 final size:23
Alignment explanation
Indices: 36464956--36465004 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
36464946 ACACTTTGTC
*
36464956 TTTTCTTCTTATTTTTATTT-TTA
1 TTTTCTTCTTA-TTATATTTCTTA
36464979 TTTTCTT-TATATTATATTTCTTA
1 TTTTCTTCT-TATTATATTTCTTA
36465002 TTT
1 TTT
36465005 ATTTTCGTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTCTTCTTATTATATTTCTTA
Found at i:36467065 original size:22 final size:22
Alignment explanation
Indices: 36467021--36467066 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
36467011 TTTTTATAAT
*
36467021 TTAGGTTTAGTCATTTCTTTTC
1 TTAGGTTTAGTCATTTCTGTTC
*
36467043 TTAGGTTTTAGTTATTT-TGTTC
1 TTAGG-TTTAGTCATTTCTGTTC
36467065 TT
1 TT
36467067 TTGTTATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.13, C:0.09, G:0.15, T:0.63
Consensus pattern (22 bp):
TTAGGTTTAGTCATTTCTGTTC
Found at i:36471718 original size:18 final size:18
Alignment explanation
Indices: 36471692--36471730 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
36471682 TTACCGATGC
**
36471692 AAAAAGGAGTTAGATCTG
1 AAAAAGGAGGAAGATCTG
*
36471710 AAAAGGGAGGAAGATCTG
1 AAAAAGGAGGAAGATCTG
36471728 AAA
1 AAA
36471731 TTACCATTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.31, T:0.15
Consensus pattern (18 bp):
AAAAAGGAGGAAGATCTG
Found at i:36489884 original size:6 final size:6
Alignment explanation
Indices: 36489875--36489951 Score: 74
Period size: 6 Copynumber: 13.7 Consensus size: 6
36489865 TATCTTAAGA
* * * *
36489875 TTAATT TTAAAT TT-TAT TTAAAT TTAAAT TT-ATT TTAAGT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
36489921 TT--AT TTAAAT TT-ATT TTAAAT TTAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAA
36489952 TCAAATTTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
4 4 0.07
5 12 0.21
6 42 0.72
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (6 bp):
TTAAAT
Found at i:36489895 original size:17 final size:16
Alignment explanation
Indices: 36489875--36489962 Score: 87
Period size: 17 Copynumber: 5.7 Consensus size: 16
36489865 TATCTTAAGA
*
36489875 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
36489892 TTAAATTTAAATTTATT
1 TTAAATTTAAATTTA-T
*
36489909 TTAAGTTTAAATTTAT
1 TTAAATTTAAATTTAT
36489925 TTAAATTT--A--T-T
1 TTAAATTTAAATTTAT
*
36489936 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAT
*
36489952 TCAAATTTAAA
1 TTAAATTTAAA
36489963 AATAATATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 9 0.15
12 1 0.02
13 1 0.02
14 1 0.02
15 1 0.02
16 22 0.37
17 25 0.42
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:36489926 original size:27 final size:27
Alignment explanation
Indices: 36489863--36489960 Score: 108
Period size: 27 Copynumber: 3.5 Consensus size: 27
36489853 TTGGATTTTG
* *
36489863 TTTATCTTAAGATTAATTTTAAATTT-TA
1 TTTAT-TTAA-ATTTATTTTAAATTTAAA
*
36489891 TTTAAATTTAAATTTATTTTAAGTTTAAA
1 TTT--ATTTAAATTTATTTTAAATTTAAA
36489920 TTTATTTAAATTTATTTTAAATTTAAA
1 TTTATTTAAATTTATTTTAAATTTAAA
* *
36489947 TTTAATCAAATTTA
1 TTTATTTAAATTTA
36489961 AAAATAATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
27 35 0.57
28 16 0.26
29 8 0.13
30 2 0.03
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (27 bp):
TTTATTTAAATTTATTTTAAATTTAAA
Found at i:36489944 original size:11 final size:11
Alignment explanation
Indices: 36489863--36489944 Score: 62
Period size: 11 Copynumber: 7.4 Consensus size: 11
36489853 TTGGATTTTG
*
36489863 TTTATCTTAAGA
1 TTTATTTTAA-A
*
36489875 TTAATTTTAAA
1 TTTATTTTAAA
36489886 TTT-TATTTAAA
1 TTTAT-TTTAAA
* *
36489897 TTTAAATTT-AT
1 TTT-ATTTTAAA
*
36489908 TTTAAGTTTAAA
1 TTT-ATTTTAAA
36489920 TTTA-TTTAAA
1 TTTATTTTAAA
36489930 TTTATTTTAAA
1 TTTATTTTAAA
36489941 TTTA
1 TTTA
36489945 AATTTAATCA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
10 11 0.19
11 32 0.55
12 15 0.26
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (11 bp):
TTTATTTTAAA
Found at i:36491956 original size:29 final size:30
Alignment explanation
Indices: 36491774--36491949 Score: 193
Period size: 29 Copynumber: 6.0 Consensus size: 30
36491764 CCCCAAACAA
* * **
36491774 TCCAGAAATTGCATTTTAACCTAAAAACTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTT
* *
36491805 TTC-AAATTGCA-TTTGACCCCAAAAACTTT
1 TCCAAAATTACATTTTGACCCC-AAAACTTT
* *
36491834 TCCAAAATTATATTTTGA-CCTAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
**
36491863 TCCAAAATTATGTTTTGACCCC-AAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
36491892 TCCAAAATTACATTTTGA-CCCAAAAC-TT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
36491920 TCAAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
36491950 CCTAAATCCC
Statistics
Matches: 125, Mismatches: 13, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
28 28 0.22
29 78 0.62
30 12 0.10
31 7 0.06
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:36492052 original size:30 final size:30
Alignment explanation
Indices: 36491958--36492164 Score: 109
Period size: 29 Copynumber: 7.2 Consensus size: 30
36491948 TTCCTAAATC
* *
36491958 CCATTTTTAACCTCAATTTCA-CAAAAATTA
1 CCATTTTT-ACCCCGATTTCACCAAAAATTA
** ** *
36491988 CCA-TTTTACCACCGA-AGCTTCTAAAATT-
1 CCATTTTTACC-CCGATTTCACCAAAAATTA
36492016 CCATTTTTACCCCGATTTCACCAAAAATTA
1 CCATTTTTACCCCGATTTCACCAAAAATTA
** ** * *
36492046 CCA-TTTTACCCCTGA-AGCTTCTAAAATTT
1 CCATTTTTACCCC-GATTTCACCAAAAATTA
** *
36492075 CGTTTTTTAACCTCGATTTCACCAAAAATTA
1 CCATTTTT-ACCCCGATTTCACCAAAAATTA
*
36492106 CCA-TTTTACCCCGAATTT-----TAAATT-
1 CCATTTTTACCCCG-ATTTCACCAAAAATTA
*
36492130 CCATTTTTATCCCGATTTCACC-AAAATTA
1 CCATTTTTACCCCGATTTCACCAAAAATTA
36492159 CCATTT
1 CCATTT
36492165 GGCCCCCGAG
Statistics
Matches: 129, Mismatches: 32, Indels: 33
0.66 0.16 0.17
Matches are distributed among these distances:
24 7 0.05
25 14 0.11
28 16 0.12
29 57 0.44
30 22 0.17
31 13 0.10
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (30 bp):
CCATTTTTACCCCGATTTCACCAAAAATTA
Found at i:36492113 original size:60 final size:58
Alignment explanation
Indices: 36491921--36492164 Score: 290
Period size: 58 Copynumber: 4.3 Consensus size: 58
36491911 CCAAAACTTT
* * * *
36491921 CAAAAATTA-CATTTTGACCCCAAAACTTTCCT-AAATCCCATTTTTAACCTCAATTTCA-
1 CAAAAATTACCATTTT-ACCCCGAAGC-TT-CTAAAATTCCATTTTTAACCTCGATTTCAC
*
36491979 CAAAAATTACCATTTTACCACCGAAGCTTCTAAAATTCCATTTTT-ACCCCGATTTCAC
1 CAAAAATTACCATTTTACC-CCGAAGCTTCTAAAATTCCATTTTTAACCTCGATTTCAC
**
36492037 CAAAAATTACCATTTTACCCCTGAAGCTTCTAAAATTTCGTTTTTTAACCTCGATTTCAC
1 CAAAAATTACCATTTTACCCC-GAAGCTTCTAAAA-TTCCATTTTTAACCTCGATTTCAC
* *
36492097 CAAAAATTACCATTTTACCCCGAA--TT-TTAAATTCCATTTTTATCC-CGATTTCAC
1 CAAAAATTACCATTTTACCCCGAAGCTTCTAAAATTCCATTTTTAACCTCGATTTCAC
36492151 C-AAAATTACCATTT
1 CAAAAATTACCATTT
36492165 GGCCCCCGAG
Statistics
Matches: 167, Mismatches: 12, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
53 13 0.08
54 10 0.06
55 11 0.07
56 4 0.02
57 16 0.10
58 58 0.35
59 22 0.13
60 33 0.20
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCGAAGCTTCTAAAATTCCATTTTTAACCTCGATTTCAC
Found at i:36504227 original size:68 final size:68
Alignment explanation
Indices: 36504119--36505140 Score: 1728
Period size: 68 Copynumber: 15.0 Consensus size: 68
36504109 CTGCAGGTCT
*
36504119 CAACGTCAT-CCCTCGGAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
36504183 GAG
66 GAG
*
36504186 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTACCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
36504251 GAG
66 GAG
* ** *
36504254 CAACGTCAT-CCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
36504318 GAG
66 GAG
* * * *
36504321 CAACGTCATCCCGTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
36504386 GAG
66 GAG
36504389 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
36504454 GAG
66 GAG
36504457 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
*
36504522 AAG
66 GAG
* * * *
36504525 CAACGTCATCCCGTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
36504590 GAG
66 GAG
36504593 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
36504658 GAG
66 GAG
36504661 CAACGTCAT-CCCTCGAAATTGAAGTAGAGTGGATAACAC-TCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
36504724 GAG
66 GAG
* * *
36504727 CAACATCATCCCGTTGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
36504792 GAG
66 GAG
* *
36504795 TAACGTCATCCCCTCAAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
36504860 GAG
66 GAG
*
36504863 CAACGTCATCCCCTCGAAATTGAAGTTGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
36504928 GAG
66 GAG
* ** *
36504931 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACATGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
36504996 GAG
66 GAG
*
36504999 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTGA
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
36505064 GAG
66 GAG
* * *
36505067 CAACGTCATCCCCTCGGAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAGTTGTTGAAG
1 CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAA---ATTGAAG
36505132 TAAGAG
63 TAAGAG
36505138 CAA
1 CAA
36505141 GATCGTTTTC
Statistics
Matches: 900, Mismatches: 48, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
66 35 0.04
67 129 0.14
68 722 0.80
71 14 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (68 bp):
CAACGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAA
GAG
Found at i:36505477 original size:6 final size:6
Alignment explanation
Indices: 36505456--36505527 Score: 73
Period size: 6 Copynumber: 12.8 Consensus size: 6
36505446 AAGATTAATT
* * *
36505456 TTTAAA TTT-TA TTTAAA TTTAAA TTT-AT TTTAAG TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
36505500 TTTAAA TTT-AT TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
36505528 TCAAATTTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
4 4 0.07
5 12 0.22
6 38 0.70
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (6 bp):
TTTAAA
Found at i:36505478 original size:17 final size:16
Alignment explanation
Indices: 36505456--36505538 Score: 86
Period size: 16 Copynumber: 5.4 Consensus size: 16
36505446 AAGATTAATT
36505456 TTTAAATTTTATTTAAA
1 TTTAAA-TTTATTTAAA
*
36505473 TTTAAATTTATTTTAAG
1 TTTAAATTTA-TTTAAA
36505490 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
36505506 TTT--A--T-TTTAAA
1 TTTAAATTTATTTAAA
* *
36505517 TTTAAATTTAATCAAA
1 TTTAAATTTATTTAAA
36505533 TTTAAA
1 TTTAAA
36505539 AATAATATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
11 9 0.16
12 1 0.02
13 1 0.02
14 1 0.02
15 1 0.02
16 22 0.39
17 21 0.38
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:36505502 original size:27 final size:27
Alignment explanation
Indices: 36505455--36505536 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
36505445 TAAGATTAAT
*
36505455 TTTTAAATTT-TATTTAAATTTAAATTTA
1 TTTTAAATTTAAATTT--ATTTAAATTTA
*
36505483 TTTTAAGTTTAAATTTATTTAAATTTA
1 TTTTAAATTTAAATTTATTTAAATTTA
* *
36505510 TTTTAAATTTAAATTTAATCAAATTTA
1 TTTTAAATTTAAATTTATTTAAATTTA
36505537 AAAATAATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 35 0.73
28 9 0.19
29 4 0.08
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (27 bp):
TTTTAAATTTAAATTTATTTAAATTTA
Found at i:36505520 original size:11 final size:11
Alignment explanation
Indices: 36505455--36505520 Score: 57
Period size: 11 Copynumber: 6.0 Consensus size: 11
36505445 TAAGATTAAT
36505455 TTTTAAATTT-
1 TTTTAAATTTA
36505465 TATTTAAATTTAA
1 T-TTTAAATTT-A
* *
36505478 ATTT-ATTTTAA
1 TTTTAAATTT-A
*
36505489 GTTTAAATTTA
1 TTTTAAATTTA
36505500 -TTTAAATTTA
1 TTTTAAATTTA
36505510 TTTTAAATTTA
1 TTTTAAATTTA
36505521 AATTTAATCA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
10 11 0.23
11 29 0.62
12 7 0.15
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:36507431 original size:29 final size:30
Alignment explanation
Indices: 36507347--36507466 Score: 136
Period size: 30 Copynumber: 4.0 Consensus size: 30
36507337 CCCCAAACAA
* * *
36507347 TCCAGAAATTGCATTTTAACCCCAAAACTTT
1 TCCA-AAATTACATTTTGACCCAAAAACTTT
* *
36507378 TTCAAAATTGCATTTTGACCGC-AAAACTTT
1 TCCAAAATTACATTTTGACC-CAAAAACTTT
*
36507408 TCCAAAATTATATTTTGACCCAAAAAC-TT
1 TCCAAAATTACATTTTGACCCAAAAACTTT
* *
36507437 TCAAAAATTACATTTTGACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCAAAAACTTT
36507467 CCTAAATCCC
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
29 27 0.35
30 47 0.60
31 4 0.05
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.35
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCAAAAACTTT
Done.